mirror of
https://github.com/p2p-ld/nwb-linkml.git
synced 2024-11-10 00:34:29 +00:00
wtf and a third commit, i gotta figure out what thats about
This commit is contained in:
parent
011902d2cb
commit
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GPG key ID:
6DCB96EF1E4D232D
129 changed files with 3215 additions and 5174 deletions
|
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@ -20,7 +20,6 @@ classes:
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|||
attributes:
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||||
name:
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||||
name: name
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||||
identifier: true
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||||
range: string
|
||||
required: true
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||||
tree_root: true
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||||
|
|
@ -33,7 +32,6 @@ classes:
|
|||
attributes:
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||||
name:
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||||
name: name
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||||
identifier: true
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||||
range: string
|
||||
required: true
|
||||
resolution:
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||||
|
|
@ -73,7 +71,6 @@ classes:
|
|||
attributes:
|
||||
name:
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||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
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||||
|
|
@ -85,7 +82,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
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||||
tree_root: true
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||||
|
|
@ -96,7 +92,6 @@ classes:
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|||
attributes:
|
||||
name:
|
||||
name: name
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||||
identifier: true
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||||
range: string
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||||
required: true
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||||
description:
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@ -115,49 +110,49 @@ classes:
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|||
dimension should always represent time. This can also be used to store binary
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||||
data (e.g., image frames). This can also be a link to data stored in an
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||||
external file.
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||||
multivalued: false
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||||
range: TimeSeries__data
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||||
required: true
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||||
multivalued: false
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||||
starting_time:
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||||
name: starting_time
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||||
description: Timestamp of the first sample in seconds. When timestamps are
|
||||
uniformly spaced, the timestamp of the first sample can be specified and
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||||
all subsequent ones calculated from the sampling rate attribute.
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||||
multivalued: false
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||||
range: TimeSeries__starting_time
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||||
required: false
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||||
multivalued: false
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||||
timestamps:
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||||
name: timestamps
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||||
description: Timestamps for samples stored in data, in seconds, relative to
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the common experiment master-clock stored in NWBFile.timestamps_reference_time.
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multivalued: false
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||||
array:
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||||
dimensions:
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||||
- alias: num_times
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||||
range: float64
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||||
required: false
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||||
multivalued: false
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||||
control:
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name: control
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||||
description: Numerical labels that apply to each time point in data for the
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purpose of querying and slicing data by these values. If present, the length
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of this array should be the same size as the first dimension of data.
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multivalued: false
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array:
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dimensions:
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- alias: num_times
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range: uint8
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||||
required: false
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multivalued: false
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||||
control_description:
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name: control_description
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||||
description: Description of each control value. Must be present if control
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is present. If present, control_description[0] should describe time points
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where control == 0.
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multivalued: false
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array:
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dimensions:
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- alias: num_control_values
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||||
range: text
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||||
required: false
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||||
multivalued: false
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sync:
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name: sync
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description: Lab-specific time and sync information as provided directly from
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@ -166,9 +161,9 @@ classes:
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|||
This group will usually only be populated in TimeSeries that are stored
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external to the NWB file, in files storing raw data. Once timestamp data
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is calculated, the contents of 'sync' are mostly for archival purposes.
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multivalued: false
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range: TimeSeries__sync
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||||
required: false
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||||
multivalued: false
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||||
tree_root: true
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||||
TimeSeries__data:
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||||
name: TimeSeries__data
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||||
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@ -179,7 +174,6 @@ classes:
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|||
name:
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||||
name: name
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||||
ifabsent: string(data)
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||||
identifier: true
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||||
range: string
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||||
required: true
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||||
equals_string: data
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||||
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@ -239,7 +233,6 @@ classes:
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|||
name:
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||||
name: name
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||||
ifabsent: string(starting_time)
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||||
identifier: true
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||||
range: string
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||||
required: true
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||||
equals_string: starting_time
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||||
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@ -267,7 +260,6 @@ classes:
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|||
name:
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||||
name: name
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||||
ifabsent: string(sync)
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||||
identifier: true
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||||
range: string
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||||
required: true
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||||
equals_string: sync
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||||
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@ -293,7 +285,6 @@ classes:
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|||
name:
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||||
name: name
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||||
ifabsent: string(Images)
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||||
identifier: true
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||||
range: string
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||||
required: true
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||||
description:
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||||
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@ -303,7 +294,7 @@ classes:
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|||
image:
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||||
name: image
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||||
description: Images stored in this collection.
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multivalued: true
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||||
range: Image
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||||
required: true
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||||
multivalued: true
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||||
tree_root: true
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||||
|
|
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|||
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@ -29,22 +29,21 @@ classes:
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|||
attributes:
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||||
name:
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||||
name: name
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||||
identifier: true
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||||
range: string
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||||
required: true
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||||
data:
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||||
name: data
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||||
description: 1-D or 2-D array storing position or direction relative to some
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||||
reference frame.
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||||
multivalued: false
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||||
range: SpatialSeries__data
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||||
required: true
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||||
multivalued: false
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||||
reference_frame:
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||||
name: reference_frame
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||||
description: Description defining what exactly 'straight-ahead' means.
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||||
multivalued: false
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||||
range: text
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||||
required: false
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||||
multivalued: false
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||||
tree_root: true
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||||
SpatialSeries__data:
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||||
name: SpatialSeries__data
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||||
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@ -54,7 +53,6 @@ classes:
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|||
name:
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||||
name: name
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||||
ifabsent: string(data)
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||||
identifier: true
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||||
range: string
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||||
required: true
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||||
equals_string: data
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||||
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|||
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@ -21,7 +21,6 @@ classes:
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|||
attributes:
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||||
name:
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||||
name: name
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||||
identifier: true
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||||
range: string
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||||
required: true
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||||
description:
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||||
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|||
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@ -25,15 +25,14 @@ classes:
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|||
attributes:
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||||
name:
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||||
name: name
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||||
identifier: true
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||||
range: string
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||||
required: true
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||||
data:
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||||
name: data
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||||
description: Recorded voltage data.
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||||
multivalued: false
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||||
range: numeric
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||||
required: true
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multivalued: false
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||||
any_of:
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- array:
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dimensions:
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||||
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@ -49,11 +48,15 @@ classes:
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|||
- alias: num_samples
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||||
electrodes:
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name: electrodes
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||||
annotations:
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||||
named:
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||||
tag: named
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||||
value: true
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||||
description: DynamicTableRegion pointer to the electrodes that this time series
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was generated from.
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||||
multivalued: false
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||||
range: ElectricalSeries__electrodes
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||||
range: DynamicTableRegion
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required: true
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||||
multivalued: false
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||||
channel_conversion:
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||||
name: channel_conversion
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||||
description: Channel-specific conversion factor. Multiply the data in the
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@ -65,26 +68,13 @@ classes:
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|||
as native values generated by data acquisition systems. If this dataset
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||||
is not present, then there is no channel-specific conversion factor, i.e.
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||||
it is 1 for all channels.
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multivalued: false
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||||
array:
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||||
dimensions:
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||||
- alias: num_channels
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||||
range: float32
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||||
required: false
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||||
multivalued: false
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||||
tree_root: true
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||||
ElectricalSeries__electrodes:
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||||
name: ElectricalSeries__electrodes
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||||
description: DynamicTableRegion pointer to the electrodes that this time series
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||||
was generated from.
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||||
is_a: DynamicTableRegion
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||||
attributes:
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||||
name:
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||||
name: name
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||||
ifabsent: string(electrodes)
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||||
identifier: true
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||||
range: string
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||||
required: true
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||||
equals_string: electrodes
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||||
SpikeEventSeries:
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||||
name: SpikeEventSeries
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||||
description: 'Stores snapshots/snippets of recorded spike events (i.e., threshold
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@ -99,15 +89,14 @@ classes:
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|||
attributes:
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||||
name:
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||||
name: name
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||||
identifier: true
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||||
range: string
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||||
required: true
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||||
data:
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||||
name: data
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||||
description: Spike waveforms.
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||||
multivalued: false
|
||||
range: numeric
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||||
required: true
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||||
multivalued: false
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||||
any_of:
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||||
- array:
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||||
dimensions:
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||||
|
|
@ -124,12 +113,12 @@ classes:
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|||
the common experiment master-clock stored in NWBFile.timestamps_reference_time.
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||||
Timestamps are required for the events. Unlike for TimeSeries, timestamps
|
||||
are required for SpikeEventSeries and are thus re-specified here.
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||||
multivalued: false
|
||||
array:
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||||
dimensions:
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||||
- alias: num_times
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||||
range: float64
|
||||
required: true
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||||
multivalued: false
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||||
tree_root: true
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||||
FeatureExtraction:
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||||
name: FeatureExtraction
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||||
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@ -140,23 +129,21 @@ classes:
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|||
name:
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||||
name: name
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||||
ifabsent: string(FeatureExtraction)
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||||
identifier: true
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||||
range: string
|
||||
required: true
|
||||
description:
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||||
name: description
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||||
description: Description of features (eg, ''PC1'') for each of the extracted
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||||
features.
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||||
multivalued: false
|
||||
array:
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||||
dimensions:
|
||||
- alias: num_features
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
features:
|
||||
name: features
|
||||
description: Multi-dimensional array of features extracted from each event.
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||||
multivalued: false
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||||
array:
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||||
dimensions:
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||||
- alias: num_events
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||||
|
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@ -164,36 +151,28 @@ classes:
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|||
- alias: num_features
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||||
range: float32
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||||
required: true
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||||
multivalued: false
|
||||
times:
|
||||
name: times
|
||||
description: Times of events that features correspond to (can be a link).
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: float64
|
||||
required: true
|
||||
multivalued: false
|
||||
electrodes:
|
||||
name: electrodes
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: DynamicTableRegion pointer to the electrodes that this time series
|
||||
was generated from.
|
||||
range: DynamicTableRegion
|
||||
required: true
|
||||
multivalued: false
|
||||
range: FeatureExtraction__electrodes
|
||||
required: true
|
||||
tree_root: true
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||||
FeatureExtraction__electrodes:
|
||||
name: FeatureExtraction__electrodes
|
||||
description: DynamicTableRegion pointer to the electrodes that this time series
|
||||
was generated from.
|
||||
is_a: DynamicTableRegion
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes
|
||||
EventDetection:
|
||||
name: EventDetection
|
||||
description: Detected spike events from voltage trace(s).
|
||||
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@ -202,37 +181,36 @@ classes:
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|||
name:
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||||
name: name
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||||
ifabsent: string(EventDetection)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
detection_method:
|
||||
name: detection_method
|
||||
description: Description of how events were detected, such as voltage threshold,
|
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or dV/dT threshold, as well as relevant values.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
source_idx:
|
||||
name: source_idx
|
||||
description: Indices (zero-based) into source ElectricalSeries::data array
|
||||
corresponding to time of event. ''description'' should define what is meant
|
||||
by time of event (e.g., .25 ms before action potential peak, zero-crossing
|
||||
time, etc). The index points to each event from the raw data.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: int32
|
||||
required: true
|
||||
multivalued: false
|
||||
times:
|
||||
name: times
|
||||
description: Timestamps of events, in seconds.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: float64
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
EventWaveform:
|
||||
name: EventWaveform
|
||||
|
|
@ -294,7 +272,6 @@ classes:
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|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -310,9 +287,9 @@ classes:
|
|||
position:
|
||||
name: position
|
||||
description: stereotaxic or common framework coordinates
|
||||
multivalued: false
|
||||
range: ElectrodeGroup__position
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ElectrodeGroup__position:
|
||||
name: ElectrodeGroup__position
|
||||
|
|
@ -321,28 +298,27 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(position)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: position
|
||||
x:
|
||||
name: x
|
||||
description: x coordinate
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
y:
|
||||
name: y
|
||||
description: y coordinate
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
z:
|
||||
name: z
|
||||
description: z coordinate
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
ClusterWaveforms:
|
||||
name: ClusterWaveforms
|
||||
description: DEPRECATED The mean waveform shape, including standard deviation,
|
||||
|
|
@ -356,39 +332,38 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(ClusterWaveforms)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
waveform_filtering:
|
||||
name: waveform_filtering
|
||||
description: Filtering applied to data before generating mean/sd
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
waveform_mean:
|
||||
name: waveform_mean
|
||||
description: The mean waveform for each cluster, using the same indices for
|
||||
each wave as cluster numbers in the associated Clustering module (i.e, cluster
|
||||
3 is in array slot [3]). Waveforms corresponding to gaps in cluster sequence
|
||||
should be empty (e.g., zero- filled)
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_clusters
|
||||
- alias: num_samples
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
waveform_sd:
|
||||
name: waveform_sd
|
||||
description: Stdev of waveforms for each cluster, using the same indices as
|
||||
in mean
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_clusters
|
||||
- alias: num_samples
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
Clustering:
|
||||
name: Clustering
|
||||
|
|
@ -399,43 +374,42 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(Clustering)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
name: description
|
||||
description: Description of clusters or clustering, (e.g. cluster 0 is noise,
|
||||
clusters curated using Klusters, etc)
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
num:
|
||||
name: num
|
||||
description: Cluster number of each event
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: int32
|
||||
required: true
|
||||
multivalued: false
|
||||
peak_over_rms:
|
||||
name: peak_over_rms
|
||||
description: Maximum ratio of waveform peak to RMS on any channel in the cluster
|
||||
(provides a basic clustering metric).
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_clusters
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
times:
|
||||
name: times
|
||||
description: Times of clustered events, in seconds. This may be a link to
|
||||
times field in associated FeatureExtraction module.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: float64
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -22,55 +22,62 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
start_time:
|
||||
name: start_time
|
||||
description: Start time of epoch, in seconds.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
stop_time:
|
||||
name: stop_time
|
||||
description: Stop time of epoch, in seconds.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
tags:
|
||||
name: tags
|
||||
description: User-defined tags that identify or categorize events.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tags_index:
|
||||
name: tags_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index for tags.
|
||||
multivalued: false
|
||||
range: TimeIntervals__tags_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
timeseries:
|
||||
name: timeseries
|
||||
description: An index into a TimeSeries object.
|
||||
multivalued: false
|
||||
range: TimeIntervals__timeseries
|
||||
required: false
|
||||
multivalued: false
|
||||
timeseries_index:
|
||||
name: timeseries_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index for timeseries.
|
||||
multivalued: false
|
||||
range: TimeIntervals__timeseries_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
TimeIntervals__tags_index:
|
||||
name: TimeIntervals__tags_index
|
||||
description: Index for tags.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(tags_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: tags_index
|
||||
TimeIntervals__timeseries:
|
||||
name: TimeIntervals__timeseries
|
||||
description: An index into a TimeSeries object.
|
||||
|
|
@ -79,7 +86,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(timeseries)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: timeseries
|
||||
|
|
@ -88,31 +94,19 @@ classes:
|
|||
description: Start index into the TimeSeries 'data' and 'timestamp' datasets
|
||||
of the referenced TimeSeries. The first dimension of those arrays is always
|
||||
time.
|
||||
multivalued: false
|
||||
range: int32
|
||||
required: false
|
||||
multivalued: false
|
||||
count:
|
||||
name: count
|
||||
description: Number of data samples available in this time series, during
|
||||
this epoch.
|
||||
multivalued: false
|
||||
range: int32
|
||||
required: false
|
||||
multivalued: false
|
||||
timeseries:
|
||||
name: timeseries
|
||||
description: the TimeSeries that this index applies to.
|
||||
multivalued: false
|
||||
range: TimeSeries
|
||||
required: false
|
||||
TimeIntervals__timeseries_index:
|
||||
name: TimeIntervals__timeseries_index
|
||||
description: Index for timeseries.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(timeseries_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: timeseries_index
|
||||
multivalued: false
|
||||
|
|
|
|||
|
|
@ -30,7 +30,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(root)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: root
|
||||
|
|
@ -48,36 +47,36 @@ classes:
|
|||
The file can be created after the experiment was run, so this may differ
|
||||
from the experiment start time. Each modification to the nwb file adds a
|
||||
new entry to the array.'
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_modifications
|
||||
range: isodatetime
|
||||
required: true
|
||||
multivalued: false
|
||||
identifier:
|
||||
name: identifier
|
||||
description: A unique text identifier for the file. For example, concatenated
|
||||
lab name, file creation date/time and experimentalist, or a hash of these
|
||||
and/or other values. The goal is that the string should be unique to all
|
||||
other files.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
session_description:
|
||||
name: session_description
|
||||
description: A description of the experimental session and data in the file.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
session_start_time:
|
||||
name: session_start_time
|
||||
description: 'Date and time of the experiment/session start. The date is stored
|
||||
in UTC with local timezone offset as ISO 8601 extended formatted string:
|
||||
2018-09-28T14:43:54.123+02:00. Dates stored in UTC end in "Z" with no timezone
|
||||
offset. Date accuracy is up to milliseconds.'
|
||||
multivalued: false
|
||||
range: isodatetime
|
||||
required: true
|
||||
multivalued: false
|
||||
timestamps_reference_time:
|
||||
name: timestamps_reference_time
|
||||
description: 'Date and time corresponding to time zero of all timestamps.
|
||||
|
|
@ -85,9 +84,9 @@ classes:
|
|||
formatted string: 2018-09-28T14:43:54.123+02:00. Dates stored in UTC end
|
||||
in "Z" with no timezone offset. Date accuracy is up to milliseconds. All
|
||||
times stored in the file use this time as reference (i.e., time zero).'
|
||||
multivalued: false
|
||||
range: isodatetime
|
||||
required: true
|
||||
multivalued: false
|
||||
acquisition:
|
||||
name: acquisition
|
||||
description: Data streams recorded from the system, including ephys, ophys,
|
||||
|
|
@ -164,9 +163,9 @@ classes:
|
|||
an experiment. The stimulus group is organized so that one version of template
|
||||
stimuli can be stored and these be used multiple times. These templates
|
||||
can exist in the present file or can be linked to a remote library file.
|
||||
multivalued: false
|
||||
range: NWBFile__stimulus
|
||||
required: true
|
||||
multivalued: false
|
||||
general:
|
||||
name: general
|
||||
description: Experimental metadata, including protocol, notes and description
|
||||
|
|
@ -184,9 +183,9 @@ classes:
|
|||
datasets. All entries in the below table are to be included when data is
|
||||
present. Unused groups (e.g., intracellular_ephys in an optophysiology experiment)
|
||||
should not be created unless there is data to store within them.
|
||||
multivalued: false
|
||||
range: NWBFile__general
|
||||
required: true
|
||||
multivalued: false
|
||||
intervals:
|
||||
name: intervals
|
||||
description: Experimental intervals, whether that be logically distinct sub-experiments
|
||||
|
|
@ -204,9 +203,9 @@ classes:
|
|||
units:
|
||||
name: units
|
||||
description: Data about sorted spike units.
|
||||
multivalued: false
|
||||
range: Units
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
NWBFile__stimulus:
|
||||
name: NWBFile__stimulus
|
||||
|
|
@ -226,7 +225,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(stimulus)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: stimulus
|
||||
|
|
@ -269,129 +267,128 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(general)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: general
|
||||
data_collection:
|
||||
name: data_collection
|
||||
description: Notes about data collection and analysis.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
experiment_description:
|
||||
name: experiment_description
|
||||
description: General description of the experiment.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
experimenter:
|
||||
name: experimenter
|
||||
description: Name of person(s) who performed the experiment. Can also specify
|
||||
roles of different people involved.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_experimenters
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
institution:
|
||||
name: institution
|
||||
description: Institution(s) where experiment was performed.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
keywords:
|
||||
name: keywords
|
||||
description: Terms to search over.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_keywords
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
lab:
|
||||
name: lab
|
||||
description: Laboratory where experiment was performed.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
notes:
|
||||
name: notes
|
||||
description: Notes about the experiment.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
pharmacology:
|
||||
name: pharmacology
|
||||
description: Description of drugs used, including how and when they were administered.
|
||||
Anesthesia(s), painkiller(s), etc., plus dosage, concentration, etc.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
protocol:
|
||||
name: protocol
|
||||
description: Experimental protocol, if applicable. e.g., include IACUC protocol
|
||||
number.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
related_publications:
|
||||
name: related_publications
|
||||
description: Publication information. PMID, DOI, URL, etc.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_publications
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
session_id:
|
||||
name: session_id
|
||||
description: Lab-specific ID for the session.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
slices:
|
||||
name: slices
|
||||
description: Description of slices, including information about preparation
|
||||
thickness, orientation, temperature, and bath solution.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
source_script:
|
||||
name: source_script
|
||||
description: Script file or link to public source code used to create this
|
||||
NWB file.
|
||||
multivalued: false
|
||||
range: NWBFile__general__source_script
|
||||
required: false
|
||||
multivalued: false
|
||||
stimulus:
|
||||
name: stimulus
|
||||
description: Notes about stimuli, such as how and where they were presented.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
surgery:
|
||||
name: surgery
|
||||
description: Narrative description about surgery/surgeries, including date(s)
|
||||
and who performed surgery.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
virus:
|
||||
name: virus
|
||||
description: Information about virus(es) used in experiments, including virus
|
||||
ID, source, date made, injection location, volume, etc.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
nwb_container:
|
||||
name: nwb_container
|
||||
description: Place-holder than can be extended so that lab-specific meta-data
|
||||
can be placed in /general.
|
||||
multivalued: true
|
||||
range: NWBContainer
|
||||
required: false
|
||||
multivalued: true
|
||||
devices:
|
||||
name: devices
|
||||
description: Description of hardware devices used during experiment, e.g.,
|
||||
|
|
@ -405,21 +402,21 @@ classes:
|
|||
name: subject
|
||||
description: Information about the animal or person from which the data was
|
||||
measured.
|
||||
multivalued: false
|
||||
range: Subject
|
||||
required: false
|
||||
multivalued: false
|
||||
extracellular_ephys:
|
||||
name: extracellular_ephys
|
||||
description: Metadata related to extracellular electrophysiology.
|
||||
multivalued: false
|
||||
range: NWBFile__general__extracellular_ephys
|
||||
required: false
|
||||
multivalued: false
|
||||
intracellular_ephys:
|
||||
name: intracellular_ephys
|
||||
description: Metadata related to intracellular electrophysiology.
|
||||
multivalued: false
|
||||
range: NWBFile__general__intracellular_ephys
|
||||
required: false
|
||||
multivalued: false
|
||||
optogenetics:
|
||||
name: optogenetics
|
||||
description: Metadata describing optogenetic stimuluation.
|
||||
|
|
@ -444,7 +441,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(source_script)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: source_script
|
||||
|
|
@ -464,60 +460,59 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(subject)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: subject
|
||||
age:
|
||||
name: age
|
||||
description: Age of subject. Can be supplied instead of 'date_of_birth'.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
date_of_birth:
|
||||
name: date_of_birth
|
||||
description: Date of birth of subject. Can be supplied instead of 'age'.
|
||||
multivalued: false
|
||||
range: isodatetime
|
||||
required: false
|
||||
multivalued: false
|
||||
description:
|
||||
name: description
|
||||
description: Description of subject and where subject came from (e.g., breeder,
|
||||
if animal).
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
genotype:
|
||||
name: genotype
|
||||
description: Genetic strain. If absent, assume Wild Type (WT).
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
sex:
|
||||
name: sex
|
||||
description: Gender of subject.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
species:
|
||||
name: species
|
||||
description: Species of subject.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
subject_id:
|
||||
name: subject_id
|
||||
description: ID of animal/person used/participating in experiment (lab convention).
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
weight:
|
||||
name: weight
|
||||
description: Weight at time of experiment, at time of surgery and at other
|
||||
important times.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
NWBFile__general__extracellular_ephys:
|
||||
name: NWBFile__general__extracellular_ephys
|
||||
description: Metadata related to extracellular electrophysiology.
|
||||
|
|
@ -525,22 +520,21 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(extracellular_ephys)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: extracellular_ephys
|
||||
electrode_group:
|
||||
name: electrode_group
|
||||
description: Physical group of electrodes.
|
||||
multivalued: true
|
||||
range: ElectrodeGroup
|
||||
required: false
|
||||
multivalued: true
|
||||
electrodes:
|
||||
name: electrodes
|
||||
description: A table of all electrodes (i.e. channels) used for recording.
|
||||
multivalued: false
|
||||
range: NWBFile__general__extracellular_ephys__electrodes
|
||||
required: false
|
||||
multivalued: false
|
||||
NWBFile__general__extracellular_ephys__electrodes:
|
||||
name: NWBFile__general__extracellular_ephys__electrodes
|
||||
description: A table of all electrodes (i.e. channels) used for recording.
|
||||
|
|
@ -549,72 +543,116 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes
|
||||
x:
|
||||
name: x
|
||||
description: x coordinate of the channel location in the brain (+x is posterior).
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
y:
|
||||
name: y
|
||||
description: y coordinate of the channel location in the brain (+y is inferior).
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
z:
|
||||
name: z
|
||||
description: z coordinate of the channel location in the brain (+z is right).
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
imp:
|
||||
name: imp
|
||||
description: Impedance of the channel.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
location:
|
||||
name: location
|
||||
description: Location of the electrode (channel). Specify the area, layer,
|
||||
comments on estimation of area/layer, stereotaxic coordinates if in vivo,
|
||||
etc. Use standard atlas names for anatomical regions when possible.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
filtering:
|
||||
name: filtering
|
||||
description: Description of hardware filtering.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
group:
|
||||
name: group
|
||||
description: Reference to the ElectrodeGroup this electrode is a part of.
|
||||
multivalued: true
|
||||
range: ElectrodeGroup
|
||||
required: true
|
||||
multivalued: true
|
||||
group_name:
|
||||
name: group_name
|
||||
description: Name of the ElectrodeGroup this electrode is a part of.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
rel_x:
|
||||
name: rel_x
|
||||
description: x coordinate in electrode group
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
rel_y:
|
||||
name: rel_y
|
||||
description: y coordinate in electrode group
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
rel_z:
|
||||
name: rel_z
|
||||
description: z coordinate in electrode group
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
reference:
|
||||
name: reference
|
||||
description: Description of the reference used for this electrode.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
NWBFile__general__intracellular_ephys:
|
||||
name: NWBFile__general__intracellular_ephys
|
||||
description: Metadata related to intracellular electrophysiology.
|
||||
|
|
@ -622,7 +660,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(intracellular_ephys)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: intracellular_ephys
|
||||
|
|
@ -631,18 +668,18 @@ classes:
|
|||
description: Description of filtering used. Includes filtering type and parameters,
|
||||
frequency fall-off, etc. If this changes between TimeSeries, filter description
|
||||
should be stored as a text attribute for each TimeSeries.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
intracellular_electrode:
|
||||
name: intracellular_electrode
|
||||
description: An intracellular electrode.
|
||||
multivalued: true
|
||||
range: IntracellularElectrode
|
||||
required: false
|
||||
multivalued: true
|
||||
sweep_table:
|
||||
name: sweep_table
|
||||
description: The table which groups different PatchClampSeries together.
|
||||
multivalued: false
|
||||
range: SweepTable
|
||||
required: false
|
||||
multivalued: false
|
||||
|
|
|
|||
|
|
@ -23,7 +23,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
stimulus_description:
|
||||
|
|
@ -37,16 +36,16 @@ classes:
|
|||
data:
|
||||
name: data
|
||||
description: Recorded voltage or current.
|
||||
multivalued: false
|
||||
range: PatchClampSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
gain:
|
||||
name: gain
|
||||
description: Gain of the recording, in units Volt/Amp (v-clamp) or Volt/Volt
|
||||
(c-clamp).
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
PatchClampSeries__data:
|
||||
name: PatchClampSeries__data
|
||||
|
|
@ -55,7 +54,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -80,33 +78,32 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Recorded voltage.
|
||||
multivalued: false
|
||||
range: CurrentClampSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
bias_current:
|
||||
name: bias_current
|
||||
description: Bias current, in amps.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
bridge_balance:
|
||||
name: bridge_balance
|
||||
description: Bridge balance, in ohms.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
capacitance_compensation:
|
||||
name: capacitance_compensation
|
||||
description: Capacitance compensation, in farads.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
CurrentClampSeries__data:
|
||||
name: CurrentClampSeries__data
|
||||
|
|
@ -115,7 +112,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -139,27 +135,26 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
bias_current:
|
||||
name: bias_current
|
||||
description: Bias current, in amps, fixed to 0.0.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
bridge_balance:
|
||||
name: bridge_balance
|
||||
description: Bridge balance, in ohms, fixed to 0.0.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
capacitance_compensation:
|
||||
name: capacitance_compensation
|
||||
description: Capacitance compensation, in farads, fixed to 0.0.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
CurrentClampStimulusSeries:
|
||||
name: CurrentClampStimulusSeries
|
||||
|
|
@ -168,15 +163,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Stimulus current applied.
|
||||
multivalued: false
|
||||
range: CurrentClampStimulusSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
CurrentClampStimulusSeries__data:
|
||||
name: CurrentClampStimulusSeries__data
|
||||
|
|
@ -185,7 +179,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -208,57 +201,56 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Recorded current.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
capacitance_fast:
|
||||
name: capacitance_fast
|
||||
description: Fast capacitance, in farads.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__capacitance_fast
|
||||
required: false
|
||||
multivalued: false
|
||||
capacitance_slow:
|
||||
name: capacitance_slow
|
||||
description: Slow capacitance, in farads.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__capacitance_slow
|
||||
required: false
|
||||
multivalued: false
|
||||
resistance_comp_bandwidth:
|
||||
name: resistance_comp_bandwidth
|
||||
description: Resistance compensation bandwidth, in hertz.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__resistance_comp_bandwidth
|
||||
required: false
|
||||
multivalued: false
|
||||
resistance_comp_correction:
|
||||
name: resistance_comp_correction
|
||||
description: Resistance compensation correction, in percent.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__resistance_comp_correction
|
||||
required: false
|
||||
multivalued: false
|
||||
resistance_comp_prediction:
|
||||
name: resistance_comp_prediction
|
||||
description: Resistance compensation prediction, in percent.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__resistance_comp_prediction
|
||||
required: false
|
||||
multivalued: false
|
||||
whole_cell_capacitance_comp:
|
||||
name: whole_cell_capacitance_comp
|
||||
description: Whole cell capacitance compensation, in farads.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__whole_cell_capacitance_comp
|
||||
required: false
|
||||
multivalued: false
|
||||
whole_cell_series_resistance_comp:
|
||||
name: whole_cell_series_resistance_comp
|
||||
description: Whole cell series resistance compensation, in ohms.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__whole_cell_series_resistance_comp
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
VoltageClampSeries__data:
|
||||
name: VoltageClampSeries__data
|
||||
|
|
@ -267,7 +259,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -288,7 +279,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(capacitance_fast)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: capacitance_fast
|
||||
|
|
@ -307,7 +297,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(capacitance_slow)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: capacitance_slow
|
||||
|
|
@ -326,7 +315,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(resistance_comp_bandwidth)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: resistance_comp_bandwidth
|
||||
|
|
@ -346,7 +334,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(resistance_comp_correction)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: resistance_comp_correction
|
||||
|
|
@ -366,7 +353,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(resistance_comp_prediction)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: resistance_comp_prediction
|
||||
|
|
@ -386,7 +372,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(whole_cell_capacitance_comp)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: whole_cell_capacitance_comp
|
||||
|
|
@ -406,7 +391,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(whole_cell_series_resistance_comp)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: whole_cell_series_resistance_comp
|
||||
|
|
@ -426,15 +410,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Stimulus voltage applied.
|
||||
multivalued: false
|
||||
range: VoltageClampStimulusSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
VoltageClampStimulusSeries__data:
|
||||
name: VoltageClampStimulusSeries__data
|
||||
|
|
@ -443,7 +426,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -464,53 +446,52 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
name: description
|
||||
description: Description of electrode (e.g., whole-cell, sharp, etc.).
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
filtering:
|
||||
name: filtering
|
||||
description: Electrode specific filtering.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
initial_access_resistance:
|
||||
name: initial_access_resistance
|
||||
description: Initial access resistance.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
location:
|
||||
name: location
|
||||
description: Location of the electrode. Specify the area, layer, comments
|
||||
on estimation of area/layer, stereotaxic coordinates if in vivo, etc. Use
|
||||
standard atlas names for anatomical regions when possible.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
resistance:
|
||||
name: resistance
|
||||
description: Electrode resistance, in ohms.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
seal:
|
||||
name: seal
|
||||
description: Information about seal used for recording.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
slice:
|
||||
name: slice
|
||||
description: Information about slice used for recording.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
SweepTable:
|
||||
name: SweepTable
|
||||
|
|
@ -519,35 +500,31 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
sweep_number:
|
||||
name: sweep_number
|
||||
description: Sweep number of the PatchClampSeries in that row.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: uint32
|
||||
required: true
|
||||
multivalued: false
|
||||
series:
|
||||
name: series
|
||||
description: The PatchClampSeries with the sweep number in that row.
|
||||
multivalued: true
|
||||
range: PatchClampSeries
|
||||
required: true
|
||||
multivalued: true
|
||||
series_index:
|
||||
name: series_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index for series.
|
||||
range: VectorIndex
|
||||
required: true
|
||||
multivalued: false
|
||||
range: SweepTable__series_index
|
||||
required: true
|
||||
tree_root: true
|
||||
SweepTable__series_index:
|
||||
name: SweepTable__series_index
|
||||
description: Index for series.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(series_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: series_index
|
||||
|
|
|
|||
|
|
@ -20,7 +20,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -31,7 +30,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -42,7 +40,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -58,15 +55,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Binary data representing images across frames.
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: false
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -82,12 +78,12 @@ classes:
|
|||
dimension:
|
||||
name: dimension
|
||||
description: Number of pixels on x, y, (and z) axes.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: rank
|
||||
range: int32
|
||||
required: false
|
||||
multivalued: false
|
||||
external_file:
|
||||
name: external_file
|
||||
description: Paths to one or more external file(s). The field is only present
|
||||
|
|
@ -95,18 +91,18 @@ classes:
|
|||
in the file system as one or more image file(s). This field should NOT be
|
||||
used if the image is stored in another NWB file and that file is linked
|
||||
to this file.
|
||||
multivalued: false
|
||||
range: ImageSeries__external_file
|
||||
required: false
|
||||
multivalued: false
|
||||
format:
|
||||
name: format
|
||||
description: Format of image. If this is 'external', then the attribute 'external_file'
|
||||
contains the path information to the image files. If this is 'raw', then
|
||||
the raw (single-channel) binary data is stored in the 'data' dataset. If
|
||||
this attribute is not present, then the default format='raw' case is assumed.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ImageSeries__external_file:
|
||||
name: ImageSeries__external_file
|
||||
|
|
@ -118,7 +114,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(external_file)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: external_file
|
||||
|
|
@ -154,7 +149,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -169,21 +163,20 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
distance:
|
||||
name: distance
|
||||
description: Distance from camera/monitor to target/eye.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
field_of_view:
|
||||
name: field_of_view
|
||||
description: Width, height and depth of image, or imaged area, in meters.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -196,9 +189,9 @@ classes:
|
|||
data:
|
||||
name: data
|
||||
description: Images presented to subject, either grayscale or RGB
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -216,9 +209,9 @@ classes:
|
|||
name: orientation
|
||||
description: Description of image relative to some reference frame (e.g.,
|
||||
which way is up). Must also specify frame of reference.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
IndexSeries:
|
||||
name: IndexSeries
|
||||
|
|
@ -232,16 +225,15 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Index of the frame in the referenced ImageSeries.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: int32
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -19,53 +19,67 @@ types:
|
|||
float32:
|
||||
name: float32
|
||||
typeof: float
|
||||
repr: np.float32
|
||||
float64:
|
||||
name: float64
|
||||
typeof: double
|
||||
repr: np.float64
|
||||
long:
|
||||
name: long
|
||||
typeof: integer
|
||||
repr: np.longlong
|
||||
int64:
|
||||
name: int64
|
||||
typeof: integer
|
||||
repr: np.int64
|
||||
int:
|
||||
name: int
|
||||
typeof: integer
|
||||
int32:
|
||||
name: int32
|
||||
typeof: integer
|
||||
repr: np.int32
|
||||
int16:
|
||||
name: int16
|
||||
typeof: integer
|
||||
repr: np.int16
|
||||
short:
|
||||
name: short
|
||||
typeof: integer
|
||||
repr: np.int16
|
||||
int8:
|
||||
name: int8
|
||||
typeof: integer
|
||||
repr: np.int8
|
||||
uint:
|
||||
name: uint
|
||||
typeof: integer
|
||||
repr: np.uint64
|
||||
minimum_value: 0
|
||||
uint32:
|
||||
name: uint32
|
||||
typeof: integer
|
||||
repr: np.uint32
|
||||
minimum_value: 0
|
||||
uint16:
|
||||
name: uint16
|
||||
typeof: integer
|
||||
repr: np.uint16
|
||||
minimum_value: 0
|
||||
uint8:
|
||||
name: uint8
|
||||
typeof: integer
|
||||
repr: np.uint8
|
||||
minimum_value: 0
|
||||
uint64:
|
||||
name: uint64
|
||||
typeof: integer
|
||||
repr: np.uint64
|
||||
minimum_value: 0
|
||||
numeric:
|
||||
name: numeric
|
||||
typeof: float
|
||||
repr: np.number
|
||||
text:
|
||||
name: text
|
||||
typeof: string
|
||||
|
|
@ -87,58 +101,7 @@ types:
|
|||
isodatetime:
|
||||
name: isodatetime
|
||||
typeof: datetime
|
||||
enums:
|
||||
FlatDType:
|
||||
name: FlatDType
|
||||
permissible_values:
|
||||
float:
|
||||
text: float
|
||||
float32:
|
||||
text: float32
|
||||
double:
|
||||
text: double
|
||||
float64:
|
||||
text: float64
|
||||
long:
|
||||
text: long
|
||||
int64:
|
||||
text: int64
|
||||
int:
|
||||
text: int
|
||||
int32:
|
||||
text: int32
|
||||
int16:
|
||||
text: int16
|
||||
short:
|
||||
text: short
|
||||
int8:
|
||||
text: int8
|
||||
uint:
|
||||
text: uint
|
||||
uint32:
|
||||
text: uint32
|
||||
uint16:
|
||||
text: uint16
|
||||
uint8:
|
||||
text: uint8
|
||||
uint64:
|
||||
text: uint64
|
||||
numeric:
|
||||
text: numeric
|
||||
text:
|
||||
text: text
|
||||
utf:
|
||||
text: utf
|
||||
utf8:
|
||||
text: utf8
|
||||
utf_8:
|
||||
text: utf_8
|
||||
ascii:
|
||||
text: ascii
|
||||
bool:
|
||||
text: bool
|
||||
isodatetime:
|
||||
text: isodatetime
|
||||
repr: np.datetime64
|
||||
classes:
|
||||
AnyType:
|
||||
name: AnyType
|
||||
|
|
|
|||
|
|
@ -30,33 +30,32 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Values of each feature at each time.
|
||||
multivalued: false
|
||||
range: AbstractFeatureSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
feature_units:
|
||||
name: feature_units
|
||||
description: Units of each feature.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_features
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
features:
|
||||
name: features
|
||||
description: Description of the features represented in TimeSeries::data.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_features
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
AbstractFeatureSeries__data:
|
||||
name: AbstractFeatureSeries__data
|
||||
|
|
@ -65,7 +64,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -96,18 +94,17 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Annotations made during an experiment.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
IntervalSeries:
|
||||
name: IntervalSeries
|
||||
|
|
@ -122,18 +119,17 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Use values >0 if interval started, <0 if interval ended.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: int8
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
DecompositionSeries:
|
||||
name: DecompositionSeries
|
||||
|
|
@ -142,28 +138,27 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Data decomposed into frequency bands.
|
||||
multivalued: false
|
||||
range: DecompositionSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
metric:
|
||||
name: metric
|
||||
description: The metric used, e.g. phase, amplitude, power.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
bands:
|
||||
name: bands
|
||||
description: Table for describing the bands that this series was generated
|
||||
from. There should be one row in this table for each band.
|
||||
multivalued: false
|
||||
range: DecompositionSeries__bands
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
DecompositionSeries__data:
|
||||
name: DecompositionSeries__data
|
||||
|
|
@ -172,7 +167,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -199,20 +193,22 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(bands)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: bands
|
||||
band_name:
|
||||
name: band_name
|
||||
description: Name of the band, e.g. theta.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
band_limits:
|
||||
name: band_limits
|
||||
description: Low and high limit of each band in Hz. If it is a Gaussian filter,
|
||||
use 2 SD on either side of the center.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_bands
|
||||
|
|
@ -220,24 +216,25 @@ classes:
|
|||
exact_cardinality: 2
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
band_mean:
|
||||
name: band_mean
|
||||
description: The mean Gaussian filters, in Hz.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_bands
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
band_stdev:
|
||||
name: band_stdev
|
||||
description: The standard deviation of Gaussian filters, in Hz.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_bands
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
Units:
|
||||
name: Units
|
||||
description: Data about spiking units. Event times of observed units (e.g. cell,
|
||||
|
|
@ -247,31 +244,37 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(Units)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
spike_times_index:
|
||||
name: spike_times_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into the spike_times dataset.
|
||||
multivalued: false
|
||||
range: Units__spike_times_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
spike_times:
|
||||
name: spike_times
|
||||
description: Spike times for each unit.
|
||||
multivalued: false
|
||||
range: Units__spike_times
|
||||
required: false
|
||||
multivalued: false
|
||||
obs_intervals_index:
|
||||
name: obs_intervals_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into the obs_intervals dataset.
|
||||
multivalued: false
|
||||
range: Units__obs_intervals_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
obs_intervals:
|
||||
name: obs_intervals
|
||||
description: Observation intervals for each unit.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_intervals
|
||||
|
|
@ -279,29 +282,39 @@ classes:
|
|||
exact_cardinality: 2
|
||||
range: float64
|
||||
required: false
|
||||
multivalued: false
|
||||
electrodes_index:
|
||||
name: electrodes_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into electrodes.
|
||||
multivalued: false
|
||||
range: Units__electrodes_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
electrodes:
|
||||
name: electrodes
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Electrode that each spike unit came from, specified using a DynamicTableRegion.
|
||||
multivalued: false
|
||||
range: Units__electrodes
|
||||
range: DynamicTableRegion
|
||||
required: false
|
||||
multivalued: false
|
||||
electrode_group:
|
||||
name: electrode_group
|
||||
description: Electrode group that each spike unit came from.
|
||||
multivalued: true
|
||||
range: ElectrodeGroup
|
||||
required: false
|
||||
multivalued: true
|
||||
waveform_mean:
|
||||
name: waveform_mean
|
||||
description: Spike waveform mean for each spike unit.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -315,9 +328,9 @@ classes:
|
|||
waveform_sd:
|
||||
name: waveform_sd
|
||||
description: Spike waveform standard deviation for each spike unit.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -329,18 +342,6 @@ classes:
|
|||
- alias: num_samples
|
||||
- alias: num_electrodes
|
||||
tree_root: true
|
||||
Units__spike_times_index:
|
||||
name: Units__spike_times_index
|
||||
description: Index into the spike_times dataset.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(spike_times_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: spike_times_index
|
||||
Units__spike_times:
|
||||
name: Units__spike_times
|
||||
description: Spike times for each unit.
|
||||
|
|
@ -349,7 +350,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(spike_times)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: spike_times
|
||||
|
|
@ -361,39 +361,3 @@ classes:
|
|||
if the acquisition time series was smoothed/interpolated and it is possible
|
||||
for the spike time to be between samples.
|
||||
range: float64
|
||||
Units__obs_intervals_index:
|
||||
name: Units__obs_intervals_index
|
||||
description: Index into the obs_intervals dataset.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(obs_intervals_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: obs_intervals_index
|
||||
Units__electrodes_index:
|
||||
name: Units__electrodes_index
|
||||
description: Index into electrodes.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes_index
|
||||
Units__electrodes:
|
||||
name: Units__electrodes
|
||||
description: Electrode that each spike unit came from, specified using a DynamicTableRegion.
|
||||
is_a: DynamicTableRegion
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes
|
||||
|
|
|
|||
|
|
@ -21,18 +21,17 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Applied power for optogenetic stimulus, in watts.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
OptogeneticStimulusSite:
|
||||
name: OptogeneticStimulusSite
|
||||
|
|
@ -41,27 +40,26 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
name: description
|
||||
description: Description of stimulation site.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
excitation_lambda:
|
||||
name: excitation_lambda
|
||||
description: Excitation wavelength, in nm.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
location:
|
||||
name: location
|
||||
description: Location of the stimulation site. Specify the area, layer, comments
|
||||
on estimation of area/layer, stereotaxic coordinates if in vivo, etc. Use
|
||||
standard atlas names for anatomical regions when possible.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -23,7 +23,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
pmt_gain:
|
||||
|
|
@ -39,9 +38,9 @@ classes:
|
|||
field_of_view:
|
||||
name: field_of_view
|
||||
description: Width, height and depth of image, or imaged area, in meters.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -60,15 +59,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Signals from ROIs.
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -79,25 +77,16 @@ classes:
|
|||
- alias: num_rois
|
||||
rois:
|
||||
name: rois
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: DynamicTableRegion referencing into an ROITable containing information
|
||||
on the ROIs stored in this timeseries.
|
||||
range: DynamicTableRegion
|
||||
required: true
|
||||
multivalued: false
|
||||
range: RoiResponseSeries__rois
|
||||
required: true
|
||||
tree_root: true
|
||||
RoiResponseSeries__rois:
|
||||
name: RoiResponseSeries__rois
|
||||
description: DynamicTableRegion referencing into an ROITable containing information
|
||||
on the ROIs stored in this timeseries.
|
||||
is_a: DynamicTableRegion
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(rois)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: rois
|
||||
DfOverF:
|
||||
name: DfOverF
|
||||
description: dF/F information about a region of interest (ROI). Storage hierarchy
|
||||
|
|
|
|||
|
|
@ -29,68 +29,67 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(ImagingRetinotopy)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
axis_1_phase_map:
|
||||
name: axis_1_phase_map
|
||||
description: Phase response to stimulus on the first measured axis.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__axis_1_phase_map
|
||||
required: true
|
||||
multivalued: false
|
||||
axis_1_power_map:
|
||||
name: axis_1_power_map
|
||||
description: Power response on the first measured axis. Response is scaled
|
||||
so 0.0 is no power in the response and 1.0 is maximum relative power.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__axis_1_power_map
|
||||
required: false
|
||||
multivalued: false
|
||||
axis_2_phase_map:
|
||||
name: axis_2_phase_map
|
||||
description: Phase response to stimulus on the second measured axis.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__axis_2_phase_map
|
||||
required: true
|
||||
multivalued: false
|
||||
axis_2_power_map:
|
||||
name: axis_2_power_map
|
||||
description: Power response on the second measured axis. Response is scaled
|
||||
so 0.0 is no power in the response and 1.0 is maximum relative power.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__axis_2_power_map
|
||||
required: false
|
||||
multivalued: false
|
||||
axis_descriptions:
|
||||
name: axis_descriptions
|
||||
description: Two-element array describing the contents of the two response
|
||||
axis fields. Description should be something like ['altitude', 'azimuth']
|
||||
or '['radius', 'theta'].
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: axis_1_axis_2
|
||||
exact_cardinality: 2
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
focal_depth_image:
|
||||
name: focal_depth_image
|
||||
description: 'Gray-scale image taken with same settings/parameters (e.g.,
|
||||
focal depth, wavelength) as data collection. Array format: [rows][columns].'
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__focal_depth_image
|
||||
required: false
|
||||
multivalued: false
|
||||
sign_map:
|
||||
name: sign_map
|
||||
description: Sine of the angle between the direction of the gradient in axis_1
|
||||
and axis_2.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__sign_map
|
||||
required: false
|
||||
multivalued: false
|
||||
vasculature_image:
|
||||
name: vasculature_image
|
||||
description: 'Gray-scale anatomical image of cortical surface. Array structure:
|
||||
[rows][columns]'
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__vasculature_image
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ImagingRetinotopy__axis_1_phase_map:
|
||||
name: ImagingRetinotopy__axis_1_phase_map
|
||||
|
|
@ -99,7 +98,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(axis_1_phase_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: axis_1_phase_map
|
||||
|
|
@ -131,7 +129,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(axis_1_power_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: axis_1_power_map
|
||||
|
|
@ -162,7 +159,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(axis_2_phase_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: axis_2_phase_map
|
||||
|
|
@ -194,7 +190,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(axis_2_power_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: axis_2_power_map
|
||||
|
|
@ -226,7 +221,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(focal_depth_image)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: focal_depth_image
|
||||
|
|
@ -267,7 +261,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(sign_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: sign_map
|
||||
|
|
@ -295,7 +288,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(vasculature_image)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: vasculature_image
|
||||
|
|
|
|||
|
|
@ -20,7 +20,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -33,7 +32,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
resolution:
|
||||
|
|
@ -73,7 +71,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -85,7 +82,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -96,7 +92,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -115,49 +110,49 @@ classes:
|
|||
dimension should always represent time. This can also be used to store binary
|
||||
data (e.g., image frames). This can also be a link to data stored in an
|
||||
external file.
|
||||
multivalued: false
|
||||
range: TimeSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
starting_time:
|
||||
name: starting_time
|
||||
description: Timestamp of the first sample in seconds. When timestamps are
|
||||
uniformly spaced, the timestamp of the first sample can be specified and
|
||||
all subsequent ones calculated from the sampling rate attribute.
|
||||
multivalued: false
|
||||
range: TimeSeries__starting_time
|
||||
required: false
|
||||
multivalued: false
|
||||
timestamps:
|
||||
name: timestamps
|
||||
description: Timestamps for samples stored in data, in seconds, relative to
|
||||
the common experiment master-clock stored in NWBFile.timestamps_reference_time.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: float64
|
||||
required: false
|
||||
multivalued: false
|
||||
control:
|
||||
name: control
|
||||
description: Numerical labels that apply to each time point in data for the
|
||||
purpose of querying and slicing data by these values. If present, the length
|
||||
of this array should be the same size as the first dimension of data.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: uint8
|
||||
required: false
|
||||
multivalued: false
|
||||
control_description:
|
||||
name: control_description
|
||||
description: Description of each control value. Must be present if control
|
||||
is present. If present, control_description[0] should describe time points
|
||||
where control == 0.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_control_values
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
sync:
|
||||
name: sync
|
||||
description: Lab-specific time and sync information as provided directly from
|
||||
|
|
@ -166,9 +161,9 @@ classes:
|
|||
This group will usually only be populated in TimeSeries that are stored
|
||||
external to the NWB file, in files storing raw data. Once timestamp data
|
||||
is calculated, the contents of 'sync' are mostly for archival purposes.
|
||||
multivalued: false
|
||||
range: TimeSeries__sync
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
TimeSeries__data:
|
||||
name: TimeSeries__data
|
||||
|
|
@ -179,7 +174,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -239,7 +233,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(starting_time)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: starting_time
|
||||
|
|
@ -267,7 +260,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(sync)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: sync
|
||||
|
|
@ -293,7 +285,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(Images)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -303,7 +294,7 @@ classes:
|
|||
image:
|
||||
name: image
|
||||
description: Images stored in this collection.
|
||||
multivalued: true
|
||||
range: Image
|
||||
required: true
|
||||
multivalued: true
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -29,22 +29,21 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: 1-D or 2-D array storing position or direction relative to some
|
||||
reference frame.
|
||||
multivalued: false
|
||||
range: SpatialSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
reference_frame:
|
||||
name: reference_frame
|
||||
description: Description defining what exactly 'straight-ahead' means.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
SpatialSeries__data:
|
||||
name: SpatialSeries__data
|
||||
|
|
@ -54,7 +53,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
|
|||
|
|
@ -21,7 +21,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
|
|||
|
|
@ -25,15 +25,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Recorded voltage data.
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -49,11 +48,15 @@ classes:
|
|||
- alias: num_samples
|
||||
electrodes:
|
||||
name: electrodes
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: DynamicTableRegion pointer to the electrodes that this time series
|
||||
was generated from.
|
||||
multivalued: false
|
||||
range: ElectricalSeries__electrodes
|
||||
range: DynamicTableRegion
|
||||
required: true
|
||||
multivalued: false
|
||||
channel_conversion:
|
||||
name: channel_conversion
|
||||
description: Channel-specific conversion factor. Multiply the data in the
|
||||
|
|
@ -65,26 +68,13 @@ classes:
|
|||
as native values generated by data acquisition systems. If this dataset
|
||||
is not present, then there is no channel-specific conversion factor, i.e.
|
||||
it is 1 for all channels.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_channels
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ElectricalSeries__electrodes:
|
||||
name: ElectricalSeries__electrodes
|
||||
description: DynamicTableRegion pointer to the electrodes that this time series
|
||||
was generated from.
|
||||
is_a: DynamicTableRegion
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes
|
||||
SpikeEventSeries:
|
||||
name: SpikeEventSeries
|
||||
description: 'Stores snapshots/snippets of recorded spike events (i.e., threshold
|
||||
|
|
@ -99,15 +89,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Spike waveforms.
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -124,12 +113,12 @@ classes:
|
|||
the common experiment master-clock stored in NWBFile.timestamps_reference_time.
|
||||
Timestamps are required for the events. Unlike for TimeSeries, timestamps
|
||||
are required for SpikeEventSeries and are thus re-specified here.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: float64
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
FeatureExtraction:
|
||||
name: FeatureExtraction
|
||||
|
|
@ -140,23 +129,21 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(FeatureExtraction)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
name: description
|
||||
description: Description of features (eg, ''PC1'') for each of the extracted
|
||||
features.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_features
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
features:
|
||||
name: features
|
||||
description: Multi-dimensional array of features extracted from each event.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
|
|
@ -164,36 +151,28 @@ classes:
|
|||
- alias: num_features
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
times:
|
||||
name: times
|
||||
description: Times of events that features correspond to (can be a link).
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: float64
|
||||
required: true
|
||||
multivalued: false
|
||||
electrodes:
|
||||
name: electrodes
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: DynamicTableRegion pointer to the electrodes that this time series
|
||||
was generated from.
|
||||
range: DynamicTableRegion
|
||||
required: true
|
||||
multivalued: false
|
||||
range: FeatureExtraction__electrodes
|
||||
required: true
|
||||
tree_root: true
|
||||
FeatureExtraction__electrodes:
|
||||
name: FeatureExtraction__electrodes
|
||||
description: DynamicTableRegion pointer to the electrodes that this time series
|
||||
was generated from.
|
||||
is_a: DynamicTableRegion
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes
|
||||
EventDetection:
|
||||
name: EventDetection
|
||||
description: Detected spike events from voltage trace(s).
|
||||
|
|
@ -202,37 +181,36 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(EventDetection)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
detection_method:
|
||||
name: detection_method
|
||||
description: Description of how events were detected, such as voltage threshold,
|
||||
or dV/dT threshold, as well as relevant values.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
source_idx:
|
||||
name: source_idx
|
||||
description: Indices (zero-based) into source ElectricalSeries::data array
|
||||
corresponding to time of event. ''description'' should define what is meant
|
||||
by time of event (e.g., .25 ms before action potential peak, zero-crossing
|
||||
time, etc). The index points to each event from the raw data.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: int32
|
||||
required: true
|
||||
multivalued: false
|
||||
times:
|
||||
name: times
|
||||
description: Timestamps of events, in seconds.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: float64
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
EventWaveform:
|
||||
name: EventWaveform
|
||||
|
|
@ -294,7 +272,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -310,9 +287,9 @@ classes:
|
|||
position:
|
||||
name: position
|
||||
description: stereotaxic or common framework coordinates
|
||||
multivalued: false
|
||||
range: ElectrodeGroup__position
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ElectrodeGroup__position:
|
||||
name: ElectrodeGroup__position
|
||||
|
|
@ -321,28 +298,27 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(position)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: position
|
||||
x:
|
||||
name: x
|
||||
description: x coordinate
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
y:
|
||||
name: y
|
||||
description: y coordinate
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
z:
|
||||
name: z
|
||||
description: z coordinate
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
ClusterWaveforms:
|
||||
name: ClusterWaveforms
|
||||
description: DEPRECATED The mean waveform shape, including standard deviation,
|
||||
|
|
@ -356,39 +332,38 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(ClusterWaveforms)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
waveform_filtering:
|
||||
name: waveform_filtering
|
||||
description: Filtering applied to data before generating mean/sd
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
waveform_mean:
|
||||
name: waveform_mean
|
||||
description: The mean waveform for each cluster, using the same indices for
|
||||
each wave as cluster numbers in the associated Clustering module (i.e, cluster
|
||||
3 is in array slot [3]). Waveforms corresponding to gaps in cluster sequence
|
||||
should be empty (e.g., zero- filled)
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_clusters
|
||||
- alias: num_samples
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
waveform_sd:
|
||||
name: waveform_sd
|
||||
description: Stdev of waveforms for each cluster, using the same indices as
|
||||
in mean
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_clusters
|
||||
- alias: num_samples
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
Clustering:
|
||||
name: Clustering
|
||||
|
|
@ -399,43 +374,42 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(Clustering)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
name: description
|
||||
description: Description of clusters or clustering, (e.g. cluster 0 is noise,
|
||||
clusters curated using Klusters, etc)
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
num:
|
||||
name: num
|
||||
description: Cluster number of each event
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: int32
|
||||
required: true
|
||||
multivalued: false
|
||||
peak_over_rms:
|
||||
name: peak_over_rms
|
||||
description: Maximum ratio of waveform peak to RMS on any channel in the cluster
|
||||
(provides a basic clustering metric).
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_clusters
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
times:
|
||||
name: times
|
||||
description: Times of clustered events, in seconds. This may be a link to
|
||||
times field in associated FeatureExtraction module.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: float64
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -22,55 +22,62 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
start_time:
|
||||
name: start_time
|
||||
description: Start time of epoch, in seconds.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
stop_time:
|
||||
name: stop_time
|
||||
description: Stop time of epoch, in seconds.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
tags:
|
||||
name: tags
|
||||
description: User-defined tags that identify or categorize events.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tags_index:
|
||||
name: tags_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index for tags.
|
||||
multivalued: false
|
||||
range: TimeIntervals__tags_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
timeseries:
|
||||
name: timeseries
|
||||
description: An index into a TimeSeries object.
|
||||
multivalued: false
|
||||
range: TimeIntervals__timeseries
|
||||
required: false
|
||||
multivalued: false
|
||||
timeseries_index:
|
||||
name: timeseries_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index for timeseries.
|
||||
multivalued: false
|
||||
range: TimeIntervals__timeseries_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
TimeIntervals__tags_index:
|
||||
name: TimeIntervals__tags_index
|
||||
description: Index for tags.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(tags_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: tags_index
|
||||
TimeIntervals__timeseries:
|
||||
name: TimeIntervals__timeseries
|
||||
description: An index into a TimeSeries object.
|
||||
|
|
@ -79,7 +86,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(timeseries)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: timeseries
|
||||
|
|
@ -88,31 +94,19 @@ classes:
|
|||
description: Start index into the TimeSeries 'data' and 'timestamp' datasets
|
||||
of the referenced TimeSeries. The first dimension of those arrays is always
|
||||
time.
|
||||
multivalued: false
|
||||
range: int32
|
||||
required: false
|
||||
multivalued: false
|
||||
count:
|
||||
name: count
|
||||
description: Number of data samples available in this time series, during
|
||||
this epoch.
|
||||
multivalued: false
|
||||
range: int32
|
||||
required: false
|
||||
multivalued: false
|
||||
timeseries:
|
||||
name: timeseries
|
||||
description: the TimeSeries that this index applies to.
|
||||
multivalued: false
|
||||
range: TimeSeries
|
||||
required: false
|
||||
TimeIntervals__timeseries_index:
|
||||
name: TimeIntervals__timeseries_index
|
||||
description: Index for timeseries.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(timeseries_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: timeseries_index
|
||||
multivalued: false
|
||||
|
|
|
|||
|
|
@ -28,7 +28,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
notes:
|
||||
|
|
@ -45,7 +44,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(root)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: root
|
||||
|
|
@ -63,36 +61,36 @@ classes:
|
|||
The file can be created after the experiment was run, so this may differ
|
||||
from the experiment start time. Each modification to the nwb file adds a
|
||||
new entry to the array.'
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_modifications
|
||||
range: isodatetime
|
||||
required: true
|
||||
multivalued: false
|
||||
identifier:
|
||||
name: identifier
|
||||
description: A unique text identifier for the file. For example, concatenated
|
||||
lab name, file creation date/time and experimentalist, or a hash of these
|
||||
and/or other values. The goal is that the string should be unique to all
|
||||
other files.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
session_description:
|
||||
name: session_description
|
||||
description: A description of the experimental session and data in the file.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
session_start_time:
|
||||
name: session_start_time
|
||||
description: 'Date and time of the experiment/session start. The date is stored
|
||||
in UTC with local timezone offset as ISO 8601 extended formatted string:
|
||||
2018-09-28T14:43:54.123+02:00. Dates stored in UTC end in "Z" with no timezone
|
||||
offset. Date accuracy is up to milliseconds.'
|
||||
multivalued: false
|
||||
range: isodatetime
|
||||
required: true
|
||||
multivalued: false
|
||||
timestamps_reference_time:
|
||||
name: timestamps_reference_time
|
||||
description: 'Date and time corresponding to time zero of all timestamps.
|
||||
|
|
@ -100,9 +98,9 @@ classes:
|
|||
formatted string: 2018-09-28T14:43:54.123+02:00. Dates stored in UTC end
|
||||
in "Z" with no timezone offset. Date accuracy is up to milliseconds. All
|
||||
times stored in the file use this time as reference (i.e., time zero).'
|
||||
multivalued: false
|
||||
range: isodatetime
|
||||
required: true
|
||||
multivalued: false
|
||||
acquisition:
|
||||
name: acquisition
|
||||
description: Data streams recorded from the system, including ephys, ophys,
|
||||
|
|
@ -179,9 +177,9 @@ classes:
|
|||
an experiment. The stimulus group is organized so that one version of template
|
||||
stimuli can be stored and these be used multiple times. These templates
|
||||
can exist in the present file or can be linked to a remote library file.
|
||||
multivalued: false
|
||||
range: NWBFile__stimulus
|
||||
required: true
|
||||
multivalued: false
|
||||
general:
|
||||
name: general
|
||||
description: Experimental metadata, including protocol, notes and description
|
||||
|
|
@ -199,9 +197,9 @@ classes:
|
|||
datasets. All entries in the below table are to be included when data is
|
||||
present. Unused groups (e.g., intracellular_ephys in an optophysiology experiment)
|
||||
should not be created unless there is data to store within them.
|
||||
multivalued: false
|
||||
range: NWBFile__general
|
||||
required: true
|
||||
multivalued: false
|
||||
intervals:
|
||||
name: intervals
|
||||
description: Experimental intervals, whether that be logically distinct sub-experiments
|
||||
|
|
@ -219,9 +217,9 @@ classes:
|
|||
units:
|
||||
name: units
|
||||
description: Data about sorted spike units.
|
||||
multivalued: false
|
||||
range: Units
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
NWBFile__stimulus:
|
||||
name: NWBFile__stimulus
|
||||
|
|
@ -241,7 +239,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(stimulus)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: stimulus
|
||||
|
|
@ -284,129 +281,128 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(general)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: general
|
||||
data_collection:
|
||||
name: data_collection
|
||||
description: Notes about data collection and analysis.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
experiment_description:
|
||||
name: experiment_description
|
||||
description: General description of the experiment.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
experimenter:
|
||||
name: experimenter
|
||||
description: Name of person(s) who performed the experiment. Can also specify
|
||||
roles of different people involved.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_experimenters
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
institution:
|
||||
name: institution
|
||||
description: Institution(s) where experiment was performed.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
keywords:
|
||||
name: keywords
|
||||
description: Terms to search over.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_keywords
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
lab:
|
||||
name: lab
|
||||
description: Laboratory where experiment was performed.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
notes:
|
||||
name: notes
|
||||
description: Notes about the experiment.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
pharmacology:
|
||||
name: pharmacology
|
||||
description: Description of drugs used, including how and when they were administered.
|
||||
Anesthesia(s), painkiller(s), etc., plus dosage, concentration, etc.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
protocol:
|
||||
name: protocol
|
||||
description: Experimental protocol, if applicable. e.g., include IACUC protocol
|
||||
number.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
related_publications:
|
||||
name: related_publications
|
||||
description: Publication information. PMID, DOI, URL, etc.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_publications
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
session_id:
|
||||
name: session_id
|
||||
description: Lab-specific ID for the session.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
slices:
|
||||
name: slices
|
||||
description: Description of slices, including information about preparation
|
||||
thickness, orientation, temperature, and bath solution.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
source_script:
|
||||
name: source_script
|
||||
description: Script file or link to public source code used to create this
|
||||
NWB file.
|
||||
multivalued: false
|
||||
range: NWBFile__general__source_script
|
||||
required: false
|
||||
multivalued: false
|
||||
stimulus:
|
||||
name: stimulus
|
||||
description: Notes about stimuli, such as how and where they were presented.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
surgery:
|
||||
name: surgery
|
||||
description: Narrative description about surgery/surgeries, including date(s)
|
||||
and who performed surgery.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
virus:
|
||||
name: virus
|
||||
description: Information about virus(es) used in experiments, including virus
|
||||
ID, source, date made, injection location, volume, etc.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
lab_meta_data:
|
||||
name: lab_meta_data
|
||||
description: Place-holder than can be extended so that lab-specific meta-data
|
||||
can be placed in /general.
|
||||
multivalued: true
|
||||
range: LabMetaData
|
||||
required: false
|
||||
multivalued: true
|
||||
devices:
|
||||
name: devices
|
||||
description: Description of hardware devices used during experiment, e.g.,
|
||||
|
|
@ -420,21 +416,21 @@ classes:
|
|||
name: subject
|
||||
description: Information about the animal or person from which the data was
|
||||
measured.
|
||||
multivalued: false
|
||||
range: Subject
|
||||
required: false
|
||||
multivalued: false
|
||||
extracellular_ephys:
|
||||
name: extracellular_ephys
|
||||
description: Metadata related to extracellular electrophysiology.
|
||||
multivalued: false
|
||||
range: NWBFile__general__extracellular_ephys
|
||||
required: false
|
||||
multivalued: false
|
||||
intracellular_ephys:
|
||||
name: intracellular_ephys
|
||||
description: Metadata related to intracellular electrophysiology.
|
||||
multivalued: false
|
||||
range: NWBFile__general__intracellular_ephys
|
||||
required: false
|
||||
multivalued: false
|
||||
optogenetics:
|
||||
name: optogenetics
|
||||
description: Metadata describing optogenetic stimuluation.
|
||||
|
|
@ -459,7 +455,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(source_script)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: source_script
|
||||
|
|
@ -478,22 +473,21 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(extracellular_ephys)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: extracellular_ephys
|
||||
electrode_group:
|
||||
name: electrode_group
|
||||
description: Physical group of electrodes.
|
||||
multivalued: true
|
||||
range: ElectrodeGroup
|
||||
required: false
|
||||
multivalued: true
|
||||
electrodes:
|
||||
name: electrodes
|
||||
description: A table of all electrodes (i.e. channels) used for recording.
|
||||
multivalued: false
|
||||
range: NWBFile__general__extracellular_ephys__electrodes
|
||||
required: false
|
||||
multivalued: false
|
||||
NWBFile__general__extracellular_ephys__electrodes:
|
||||
name: NWBFile__general__extracellular_ephys__electrodes
|
||||
description: A table of all electrodes (i.e. channels) used for recording.
|
||||
|
|
@ -502,72 +496,116 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes
|
||||
x:
|
||||
name: x
|
||||
description: x coordinate of the channel location in the brain (+x is posterior).
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
y:
|
||||
name: y
|
||||
description: y coordinate of the channel location in the brain (+y is inferior).
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
z:
|
||||
name: z
|
||||
description: z coordinate of the channel location in the brain (+z is right).
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
imp:
|
||||
name: imp
|
||||
description: Impedance of the channel.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
location:
|
||||
name: location
|
||||
description: Location of the electrode (channel). Specify the area, layer,
|
||||
comments on estimation of area/layer, stereotaxic coordinates if in vivo,
|
||||
etc. Use standard atlas names for anatomical regions when possible.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
filtering:
|
||||
name: filtering
|
||||
description: Description of hardware filtering.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
group:
|
||||
name: group
|
||||
description: Reference to the ElectrodeGroup this electrode is a part of.
|
||||
multivalued: true
|
||||
range: ElectrodeGroup
|
||||
required: true
|
||||
multivalued: true
|
||||
group_name:
|
||||
name: group_name
|
||||
description: Name of the ElectrodeGroup this electrode is a part of.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
rel_x:
|
||||
name: rel_x
|
||||
description: x coordinate in electrode group
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
rel_y:
|
||||
name: rel_y
|
||||
description: y coordinate in electrode group
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
rel_z:
|
||||
name: rel_z
|
||||
description: z coordinate in electrode group
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
reference:
|
||||
name: reference
|
||||
description: Description of the reference used for this electrode.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
NWBFile__general__intracellular_ephys:
|
||||
name: NWBFile__general__intracellular_ephys
|
||||
description: Metadata related to intracellular electrophysiology.
|
||||
|
|
@ -575,7 +613,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(intracellular_ephys)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: intracellular_ephys
|
||||
|
|
@ -584,21 +621,21 @@ classes:
|
|||
description: Description of filtering used. Includes filtering type and parameters,
|
||||
frequency fall-off, etc. If this changes between TimeSeries, filter description
|
||||
should be stored as a text attribute for each TimeSeries.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
intracellular_electrode:
|
||||
name: intracellular_electrode
|
||||
description: An intracellular electrode.
|
||||
multivalued: true
|
||||
range: IntracellularElectrode
|
||||
required: false
|
||||
multivalued: true
|
||||
sweep_table:
|
||||
name: sweep_table
|
||||
description: The table which groups different PatchClampSeries together.
|
||||
multivalued: false
|
||||
range: SweepTable
|
||||
required: false
|
||||
multivalued: false
|
||||
LabMetaData:
|
||||
name: LabMetaData
|
||||
description: Lab-specific meta-data.
|
||||
|
|
@ -606,7 +643,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -617,57 +653,56 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
age:
|
||||
name: age
|
||||
description: Age of subject. Can be supplied instead of 'date_of_birth'.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
date_of_birth:
|
||||
name: date_of_birth
|
||||
description: Date of birth of subject. Can be supplied instead of 'age'.
|
||||
multivalued: false
|
||||
range: isodatetime
|
||||
required: false
|
||||
multivalued: false
|
||||
description:
|
||||
name: description
|
||||
description: Description of subject and where subject came from (e.g., breeder,
|
||||
if animal).
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
genotype:
|
||||
name: genotype
|
||||
description: Genetic strain. If absent, assume Wild Type (WT).
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
sex:
|
||||
name: sex
|
||||
description: Gender of subject.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
species:
|
||||
name: species
|
||||
description: Species of subject.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
subject_id:
|
||||
name: subject_id
|
||||
description: ID of animal/person used/participating in experiment (lab convention).
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
weight:
|
||||
name: weight
|
||||
description: Weight at time of experiment, at time of surgery and at other
|
||||
important times.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -23,7 +23,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
stimulus_description:
|
||||
|
|
@ -37,16 +36,16 @@ classes:
|
|||
data:
|
||||
name: data
|
||||
description: Recorded voltage or current.
|
||||
multivalued: false
|
||||
range: PatchClampSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
gain:
|
||||
name: gain
|
||||
description: Gain of the recording, in units Volt/Amp (v-clamp) or Volt/Volt
|
||||
(c-clamp).
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
PatchClampSeries__data:
|
||||
name: PatchClampSeries__data
|
||||
|
|
@ -55,7 +54,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -80,33 +78,32 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Recorded voltage.
|
||||
multivalued: false
|
||||
range: CurrentClampSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
bias_current:
|
||||
name: bias_current
|
||||
description: Bias current, in amps.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
bridge_balance:
|
||||
name: bridge_balance
|
||||
description: Bridge balance, in ohms.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
capacitance_compensation:
|
||||
name: capacitance_compensation
|
||||
description: Capacitance compensation, in farads.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
CurrentClampSeries__data:
|
||||
name: CurrentClampSeries__data
|
||||
|
|
@ -115,7 +112,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -139,27 +135,26 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
bias_current:
|
||||
name: bias_current
|
||||
description: Bias current, in amps, fixed to 0.0.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
bridge_balance:
|
||||
name: bridge_balance
|
||||
description: Bridge balance, in ohms, fixed to 0.0.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
capacitance_compensation:
|
||||
name: capacitance_compensation
|
||||
description: Capacitance compensation, in farads, fixed to 0.0.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
CurrentClampStimulusSeries:
|
||||
name: CurrentClampStimulusSeries
|
||||
|
|
@ -168,15 +163,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Stimulus current applied.
|
||||
multivalued: false
|
||||
range: CurrentClampStimulusSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
CurrentClampStimulusSeries__data:
|
||||
name: CurrentClampStimulusSeries__data
|
||||
|
|
@ -185,7 +179,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -208,57 +201,56 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Recorded current.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
capacitance_fast:
|
||||
name: capacitance_fast
|
||||
description: Fast capacitance, in farads.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__capacitance_fast
|
||||
required: false
|
||||
multivalued: false
|
||||
capacitance_slow:
|
||||
name: capacitance_slow
|
||||
description: Slow capacitance, in farads.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__capacitance_slow
|
||||
required: false
|
||||
multivalued: false
|
||||
resistance_comp_bandwidth:
|
||||
name: resistance_comp_bandwidth
|
||||
description: Resistance compensation bandwidth, in hertz.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__resistance_comp_bandwidth
|
||||
required: false
|
||||
multivalued: false
|
||||
resistance_comp_correction:
|
||||
name: resistance_comp_correction
|
||||
description: Resistance compensation correction, in percent.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__resistance_comp_correction
|
||||
required: false
|
||||
multivalued: false
|
||||
resistance_comp_prediction:
|
||||
name: resistance_comp_prediction
|
||||
description: Resistance compensation prediction, in percent.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__resistance_comp_prediction
|
||||
required: false
|
||||
multivalued: false
|
||||
whole_cell_capacitance_comp:
|
||||
name: whole_cell_capacitance_comp
|
||||
description: Whole cell capacitance compensation, in farads.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__whole_cell_capacitance_comp
|
||||
required: false
|
||||
multivalued: false
|
||||
whole_cell_series_resistance_comp:
|
||||
name: whole_cell_series_resistance_comp
|
||||
description: Whole cell series resistance compensation, in ohms.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__whole_cell_series_resistance_comp
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
VoltageClampSeries__data:
|
||||
name: VoltageClampSeries__data
|
||||
|
|
@ -267,7 +259,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -288,7 +279,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(capacitance_fast)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: capacitance_fast
|
||||
|
|
@ -307,7 +297,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(capacitance_slow)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: capacitance_slow
|
||||
|
|
@ -326,7 +315,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(resistance_comp_bandwidth)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: resistance_comp_bandwidth
|
||||
|
|
@ -346,7 +334,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(resistance_comp_correction)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: resistance_comp_correction
|
||||
|
|
@ -366,7 +353,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(resistance_comp_prediction)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: resistance_comp_prediction
|
||||
|
|
@ -386,7 +372,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(whole_cell_capacitance_comp)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: whole_cell_capacitance_comp
|
||||
|
|
@ -406,7 +391,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(whole_cell_series_resistance_comp)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: whole_cell_series_resistance_comp
|
||||
|
|
@ -426,15 +410,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Stimulus voltage applied.
|
||||
multivalued: false
|
||||
range: VoltageClampStimulusSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
VoltageClampStimulusSeries__data:
|
||||
name: VoltageClampStimulusSeries__data
|
||||
|
|
@ -443,7 +426,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -464,53 +446,52 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
name: description
|
||||
description: Description of electrode (e.g., whole-cell, sharp, etc.).
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
filtering:
|
||||
name: filtering
|
||||
description: Electrode specific filtering.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
initial_access_resistance:
|
||||
name: initial_access_resistance
|
||||
description: Initial access resistance.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
location:
|
||||
name: location
|
||||
description: Location of the electrode. Specify the area, layer, comments
|
||||
on estimation of area/layer, stereotaxic coordinates if in vivo, etc. Use
|
||||
standard atlas names for anatomical regions when possible.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
resistance:
|
||||
name: resistance
|
||||
description: Electrode resistance, in ohms.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
seal:
|
||||
name: seal
|
||||
description: Information about seal used for recording.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
slice:
|
||||
name: slice
|
||||
description: Information about slice used for recording.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
SweepTable:
|
||||
name: SweepTable
|
||||
|
|
@ -519,35 +500,31 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
sweep_number:
|
||||
name: sweep_number
|
||||
description: Sweep number of the PatchClampSeries in that row.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: uint32
|
||||
required: true
|
||||
multivalued: false
|
||||
series:
|
||||
name: series
|
||||
description: The PatchClampSeries with the sweep number in that row.
|
||||
multivalued: true
|
||||
range: PatchClampSeries
|
||||
required: true
|
||||
multivalued: true
|
||||
series_index:
|
||||
name: series_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index for series.
|
||||
range: VectorIndex
|
||||
required: true
|
||||
multivalued: false
|
||||
range: SweepTable__series_index
|
||||
required: true
|
||||
tree_root: true
|
||||
SweepTable__series_index:
|
||||
name: SweepTable__series_index
|
||||
description: Index for series.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(series_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: series_index
|
||||
|
|
|
|||
|
|
@ -20,7 +20,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -31,7 +30,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -42,7 +40,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -58,15 +55,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Binary data representing images across frames.
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: false
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -82,12 +78,12 @@ classes:
|
|||
dimension:
|
||||
name: dimension
|
||||
description: Number of pixels on x, y, (and z) axes.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: rank
|
||||
range: int32
|
||||
required: false
|
||||
multivalued: false
|
||||
external_file:
|
||||
name: external_file
|
||||
description: Paths to one or more external file(s). The field is only present
|
||||
|
|
@ -95,18 +91,18 @@ classes:
|
|||
in the file system as one or more image file(s). This field should NOT be
|
||||
used if the image is stored in another NWB file and that file is linked
|
||||
to this file.
|
||||
multivalued: false
|
||||
range: ImageSeries__external_file
|
||||
required: false
|
||||
multivalued: false
|
||||
format:
|
||||
name: format
|
||||
description: Format of image. If this is 'external', then the attribute 'external_file'
|
||||
contains the path information to the image files. If this is 'raw', then
|
||||
the raw (single-channel) binary data is stored in the 'data' dataset. If
|
||||
this attribute is not present, then the default format='raw' case is assumed.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ImageSeries__external_file:
|
||||
name: ImageSeries__external_file
|
||||
|
|
@ -118,7 +114,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(external_file)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: external_file
|
||||
|
|
@ -154,7 +149,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -169,21 +163,20 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
distance:
|
||||
name: distance
|
||||
description: Distance from camera/monitor to target/eye.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
field_of_view:
|
||||
name: field_of_view
|
||||
description: Width, height and depth of image, or imaged area, in meters.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -196,9 +189,9 @@ classes:
|
|||
data:
|
||||
name: data
|
||||
description: Images presented to subject, either grayscale or RGB
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -216,9 +209,9 @@ classes:
|
|||
name: orientation
|
||||
description: Description of image relative to some reference frame (e.g.,
|
||||
which way is up). Must also specify frame of reference.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
IndexSeries:
|
||||
name: IndexSeries
|
||||
|
|
@ -232,16 +225,15 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Index of the frame in the referenced ImageSeries.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: int32
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -19,53 +19,67 @@ types:
|
|||
float32:
|
||||
name: float32
|
||||
typeof: float
|
||||
repr: np.float32
|
||||
float64:
|
||||
name: float64
|
||||
typeof: double
|
||||
repr: np.float64
|
||||
long:
|
||||
name: long
|
||||
typeof: integer
|
||||
repr: np.longlong
|
||||
int64:
|
||||
name: int64
|
||||
typeof: integer
|
||||
repr: np.int64
|
||||
int:
|
||||
name: int
|
||||
typeof: integer
|
||||
int32:
|
||||
name: int32
|
||||
typeof: integer
|
||||
repr: np.int32
|
||||
int16:
|
||||
name: int16
|
||||
typeof: integer
|
||||
repr: np.int16
|
||||
short:
|
||||
name: short
|
||||
typeof: integer
|
||||
repr: np.int16
|
||||
int8:
|
||||
name: int8
|
||||
typeof: integer
|
||||
repr: np.int8
|
||||
uint:
|
||||
name: uint
|
||||
typeof: integer
|
||||
repr: np.uint64
|
||||
minimum_value: 0
|
||||
uint32:
|
||||
name: uint32
|
||||
typeof: integer
|
||||
repr: np.uint32
|
||||
minimum_value: 0
|
||||
uint16:
|
||||
name: uint16
|
||||
typeof: integer
|
||||
repr: np.uint16
|
||||
minimum_value: 0
|
||||
uint8:
|
||||
name: uint8
|
||||
typeof: integer
|
||||
repr: np.uint8
|
||||
minimum_value: 0
|
||||
uint64:
|
||||
name: uint64
|
||||
typeof: integer
|
||||
repr: np.uint64
|
||||
minimum_value: 0
|
||||
numeric:
|
||||
name: numeric
|
||||
typeof: float
|
||||
repr: np.number
|
||||
text:
|
||||
name: text
|
||||
typeof: string
|
||||
|
|
@ -87,58 +101,7 @@ types:
|
|||
isodatetime:
|
||||
name: isodatetime
|
||||
typeof: datetime
|
||||
enums:
|
||||
FlatDType:
|
||||
name: FlatDType
|
||||
permissible_values:
|
||||
float:
|
||||
text: float
|
||||
float32:
|
||||
text: float32
|
||||
double:
|
||||
text: double
|
||||
float64:
|
||||
text: float64
|
||||
long:
|
||||
text: long
|
||||
int64:
|
||||
text: int64
|
||||
int:
|
||||
text: int
|
||||
int32:
|
||||
text: int32
|
||||
int16:
|
||||
text: int16
|
||||
short:
|
||||
text: short
|
||||
int8:
|
||||
text: int8
|
||||
uint:
|
||||
text: uint
|
||||
uint32:
|
||||
text: uint32
|
||||
uint16:
|
||||
text: uint16
|
||||
uint8:
|
||||
text: uint8
|
||||
uint64:
|
||||
text: uint64
|
||||
numeric:
|
||||
text: numeric
|
||||
text:
|
||||
text: text
|
||||
utf:
|
||||
text: utf
|
||||
utf8:
|
||||
text: utf8
|
||||
utf_8:
|
||||
text: utf_8
|
||||
ascii:
|
||||
text: ascii
|
||||
bool:
|
||||
text: bool
|
||||
isodatetime:
|
||||
text: isodatetime
|
||||
repr: np.datetime64
|
||||
classes:
|
||||
AnyType:
|
||||
name: AnyType
|
||||
|
|
|
|||
|
|
@ -30,33 +30,32 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Values of each feature at each time.
|
||||
multivalued: false
|
||||
range: AbstractFeatureSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
feature_units:
|
||||
name: feature_units
|
||||
description: Units of each feature.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_features
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
features:
|
||||
name: features
|
||||
description: Description of the features represented in TimeSeries::data.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_features
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
AbstractFeatureSeries__data:
|
||||
name: AbstractFeatureSeries__data
|
||||
|
|
@ -65,7 +64,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -96,18 +94,17 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Annotations made during an experiment.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
IntervalSeries:
|
||||
name: IntervalSeries
|
||||
|
|
@ -122,18 +119,17 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Use values >0 if interval started, <0 if interval ended.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: int8
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
DecompositionSeries:
|
||||
name: DecompositionSeries
|
||||
|
|
@ -142,28 +138,27 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Data decomposed into frequency bands.
|
||||
multivalued: false
|
||||
range: DecompositionSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
metric:
|
||||
name: metric
|
||||
description: The metric used, e.g. phase, amplitude, power.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
bands:
|
||||
name: bands
|
||||
description: Table for describing the bands that this series was generated
|
||||
from. There should be one row in this table for each band.
|
||||
multivalued: false
|
||||
range: DecompositionSeries__bands
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
DecompositionSeries__data:
|
||||
name: DecompositionSeries__data
|
||||
|
|
@ -172,7 +167,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -199,20 +193,22 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(bands)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: bands
|
||||
band_name:
|
||||
name: band_name
|
||||
description: Name of the band, e.g. theta.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
band_limits:
|
||||
name: band_limits
|
||||
description: Low and high limit of each band in Hz. If it is a Gaussian filter,
|
||||
use 2 SD on either side of the center.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_bands
|
||||
|
|
@ -220,24 +216,25 @@ classes:
|
|||
exact_cardinality: 2
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
band_mean:
|
||||
name: band_mean
|
||||
description: The mean Gaussian filters, in Hz.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_bands
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
band_stdev:
|
||||
name: band_stdev
|
||||
description: The standard deviation of Gaussian filters, in Hz.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_bands
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
Units:
|
||||
name: Units
|
||||
description: Data about spiking units. Event times of observed units (e.g. cell,
|
||||
|
|
@ -247,31 +244,37 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(Units)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
spike_times_index:
|
||||
name: spike_times_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into the spike_times dataset.
|
||||
multivalued: false
|
||||
range: Units__spike_times_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
spike_times:
|
||||
name: spike_times
|
||||
description: Spike times for each unit.
|
||||
multivalued: false
|
||||
range: Units__spike_times
|
||||
required: false
|
||||
multivalued: false
|
||||
obs_intervals_index:
|
||||
name: obs_intervals_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into the obs_intervals dataset.
|
||||
multivalued: false
|
||||
range: Units__obs_intervals_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
obs_intervals:
|
||||
name: obs_intervals
|
||||
description: Observation intervals for each unit.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_intervals
|
||||
|
|
@ -279,29 +282,39 @@ classes:
|
|||
exact_cardinality: 2
|
||||
range: float64
|
||||
required: false
|
||||
multivalued: false
|
||||
electrodes_index:
|
||||
name: electrodes_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into electrodes.
|
||||
multivalued: false
|
||||
range: Units__electrodes_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
electrodes:
|
||||
name: electrodes
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Electrode that each spike unit came from, specified using a DynamicTableRegion.
|
||||
multivalued: false
|
||||
range: Units__electrodes
|
||||
range: DynamicTableRegion
|
||||
required: false
|
||||
multivalued: false
|
||||
electrode_group:
|
||||
name: electrode_group
|
||||
description: Electrode group that each spike unit came from.
|
||||
multivalued: true
|
||||
range: ElectrodeGroup
|
||||
required: false
|
||||
multivalued: true
|
||||
waveform_mean:
|
||||
name: waveform_mean
|
||||
description: Spike waveform mean for each spike unit.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -315,9 +328,9 @@ classes:
|
|||
waveform_sd:
|
||||
name: waveform_sd
|
||||
description: Spike waveform standard deviation for each spike unit.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -329,18 +342,6 @@ classes:
|
|||
- alias: num_samples
|
||||
- alias: num_electrodes
|
||||
tree_root: true
|
||||
Units__spike_times_index:
|
||||
name: Units__spike_times_index
|
||||
description: Index into the spike_times dataset.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(spike_times_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: spike_times_index
|
||||
Units__spike_times:
|
||||
name: Units__spike_times
|
||||
description: Spike times for each unit.
|
||||
|
|
@ -349,7 +350,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(spike_times)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: spike_times
|
||||
|
|
@ -361,39 +361,3 @@ classes:
|
|||
if the acquisition time series was smoothed/interpolated and it is possible
|
||||
for the spike time to be between samples.
|
||||
range: float64
|
||||
Units__obs_intervals_index:
|
||||
name: Units__obs_intervals_index
|
||||
description: Index into the obs_intervals dataset.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(obs_intervals_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: obs_intervals_index
|
||||
Units__electrodes_index:
|
||||
name: Units__electrodes_index
|
||||
description: Index into electrodes.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes_index
|
||||
Units__electrodes:
|
||||
name: Units__electrodes
|
||||
description: Electrode that each spike unit came from, specified using a DynamicTableRegion.
|
||||
is_a: DynamicTableRegion
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes
|
||||
|
|
|
|||
|
|
@ -21,18 +21,17 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Applied power for optogenetic stimulus, in watts.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
OptogeneticStimulusSite:
|
||||
name: OptogeneticStimulusSite
|
||||
|
|
@ -41,27 +40,26 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
name: description
|
||||
description: Description of stimulation site.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
excitation_lambda:
|
||||
name: excitation_lambda
|
||||
description: Excitation wavelength, in nm.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
location:
|
||||
name: location
|
||||
description: Location of the stimulation site. Specify the area, layer, comments
|
||||
on estimation of area/layer, stereotaxic coordinates if in vivo, etc. Use
|
||||
standard atlas names for anatomical regions when possible.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -23,7 +23,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
pmt_gain:
|
||||
|
|
@ -39,9 +38,9 @@ classes:
|
|||
field_of_view:
|
||||
name: field_of_view
|
||||
description: Width, height and depth of image, or imaged area, in meters.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -60,15 +59,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Signals from ROIs.
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -79,25 +77,16 @@ classes:
|
|||
- alias: num_rois
|
||||
rois:
|
||||
name: rois
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: DynamicTableRegion referencing into an ROITable containing information
|
||||
on the ROIs stored in this timeseries.
|
||||
range: DynamicTableRegion
|
||||
required: true
|
||||
multivalued: false
|
||||
range: RoiResponseSeries__rois
|
||||
required: true
|
||||
tree_root: true
|
||||
RoiResponseSeries__rois:
|
||||
name: RoiResponseSeries__rois
|
||||
description: DynamicTableRegion referencing into an ROITable containing information
|
||||
on the ROIs stored in this timeseries.
|
||||
is_a: DynamicTableRegion
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(rois)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: rois
|
||||
DfOverF:
|
||||
name: DfOverF
|
||||
description: dF/F information about a region of interest (ROI). Storage hierarchy
|
||||
|
|
@ -154,56 +143,51 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
image_mask:
|
||||
name: image_mask
|
||||
description: ROI masks for each ROI. Each image mask is the size of the original
|
||||
imaging plane (or volume) and members of the ROI are finite non-zero.
|
||||
multivalued: false
|
||||
range: AnyType
|
||||
range: PlaneSegmentation__image_mask
|
||||
required: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
- alias: num_roi
|
||||
- alias: num_x
|
||||
- alias: num_y
|
||||
- array:
|
||||
dimensions:
|
||||
- alias: num_roi
|
||||
- alias: num_x
|
||||
- alias: num_y
|
||||
- alias: num_z
|
||||
multivalued: false
|
||||
pixel_mask_index:
|
||||
name: pixel_mask_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into pixel_mask.
|
||||
multivalued: false
|
||||
range: PlaneSegmentation__pixel_mask_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
pixel_mask:
|
||||
name: pixel_mask
|
||||
description: 'Pixel masks for each ROI: a list of indices and weights for
|
||||
the ROI. Pixel masks are concatenated and parsing of this dataset is maintained
|
||||
by the PlaneSegmentation'
|
||||
multivalued: false
|
||||
range: PlaneSegmentation__pixel_mask
|
||||
required: false
|
||||
multivalued: false
|
||||
voxel_mask_index:
|
||||
name: voxel_mask_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into voxel_mask.
|
||||
multivalued: false
|
||||
range: PlaneSegmentation__voxel_mask_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
voxel_mask:
|
||||
name: voxel_mask
|
||||
description: 'Voxel masks for each ROI: a list of indices and weights for
|
||||
the ROI. Voxel masks are concatenated and parsing of this dataset is maintained
|
||||
by the PlaneSegmentation'
|
||||
multivalued: false
|
||||
range: PlaneSegmentation__voxel_mask
|
||||
required: false
|
||||
multivalued: false
|
||||
reference_images:
|
||||
name: reference_images
|
||||
description: Image stacks that the segmentation masks apply to.
|
||||
|
|
@ -213,18 +197,18 @@ classes:
|
|||
any_of:
|
||||
- range: ImageSeries
|
||||
tree_root: true
|
||||
PlaneSegmentation__pixel_mask_index:
|
||||
name: PlaneSegmentation__pixel_mask_index
|
||||
description: Index into pixel_mask.
|
||||
is_a: VectorIndex
|
||||
PlaneSegmentation__image_mask:
|
||||
name: PlaneSegmentation__image_mask
|
||||
description: ROI masks for each ROI. Each image mask is the size of the original
|
||||
imaging plane (or volume) and members of the ROI are finite non-zero.
|
||||
is_a: VectorData
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(pixel_mask_index)
|
||||
identifier: true
|
||||
ifabsent: string(image_mask)
|
||||
range: string
|
||||
required: true
|
||||
equals_string: pixel_mask_index
|
||||
equals_string: image_mask
|
||||
PlaneSegmentation__pixel_mask:
|
||||
name: PlaneSegmentation__pixel_mask
|
||||
description: 'Pixel masks for each ROI: a list of indices and weights for the
|
||||
|
|
@ -235,40 +219,27 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(pixel_mask)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: pixel_mask
|
||||
x:
|
||||
name: x
|
||||
description: Pixel x-coordinate.
|
||||
multivalued: false
|
||||
range: uint32
|
||||
required: false
|
||||
multivalued: false
|
||||
y:
|
||||
name: y
|
||||
description: Pixel y-coordinate.
|
||||
multivalued: false
|
||||
range: uint32
|
||||
required: false
|
||||
multivalued: false
|
||||
weight:
|
||||
name: weight
|
||||
description: Weight of the pixel.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
PlaneSegmentation__voxel_mask_index:
|
||||
name: PlaneSegmentation__voxel_mask_index
|
||||
description: Index into voxel_mask.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(voxel_mask_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: voxel_mask_index
|
||||
multivalued: false
|
||||
PlaneSegmentation__voxel_mask:
|
||||
name: PlaneSegmentation__voxel_mask
|
||||
description: 'Voxel masks for each ROI: a list of indices and weights for the
|
||||
|
|
@ -279,34 +250,33 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(voxel_mask)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: voxel_mask
|
||||
x:
|
||||
name: x
|
||||
description: Voxel x-coordinate.
|
||||
multivalued: false
|
||||
range: uint32
|
||||
required: false
|
||||
multivalued: false
|
||||
y:
|
||||
name: y
|
||||
description: Voxel y-coordinate.
|
||||
multivalued: false
|
||||
range: uint32
|
||||
required: false
|
||||
multivalued: false
|
||||
z:
|
||||
name: z
|
||||
description: Voxel z-coordinate.
|
||||
multivalued: false
|
||||
range: uint32
|
||||
required: false
|
||||
multivalued: false
|
||||
weight:
|
||||
name: weight
|
||||
description: Weight of the voxel.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
ImagingPlane:
|
||||
name: ImagingPlane
|
||||
description: An imaging plane and its metadata.
|
||||
|
|
@ -327,21 +297,20 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
name: description
|
||||
description: Description or other notes about the channel.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
emission_lambda:
|
||||
name: emission_lambda
|
||||
description: Emission wavelength for channel, in nm.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
MotionCorrection:
|
||||
name: MotionCorrection
|
||||
|
|
@ -365,20 +334,19 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
corrected:
|
||||
name: corrected
|
||||
description: Image stack with frames shifted to the common coordinates.
|
||||
multivalued: false
|
||||
range: ImageSeries
|
||||
required: true
|
||||
multivalued: false
|
||||
xy_translation:
|
||||
name: xy_translation
|
||||
description: Stores the x,y delta necessary to align each frame to the common
|
||||
coordinates, for example, to align each frame to a reference image.
|
||||
multivalued: false
|
||||
range: TimeSeries
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -29,68 +29,67 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(ImagingRetinotopy)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
axis_1_phase_map:
|
||||
name: axis_1_phase_map
|
||||
description: Phase response to stimulus on the first measured axis.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__axis_1_phase_map
|
||||
required: true
|
||||
multivalued: false
|
||||
axis_1_power_map:
|
||||
name: axis_1_power_map
|
||||
description: Power response on the first measured axis. Response is scaled
|
||||
so 0.0 is no power in the response and 1.0 is maximum relative power.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__axis_1_power_map
|
||||
required: false
|
||||
multivalued: false
|
||||
axis_2_phase_map:
|
||||
name: axis_2_phase_map
|
||||
description: Phase response to stimulus on the second measured axis.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__axis_2_phase_map
|
||||
required: true
|
||||
multivalued: false
|
||||
axis_2_power_map:
|
||||
name: axis_2_power_map
|
||||
description: Power response on the second measured axis. Response is scaled
|
||||
so 0.0 is no power in the response and 1.0 is maximum relative power.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__axis_2_power_map
|
||||
required: false
|
||||
multivalued: false
|
||||
axis_descriptions:
|
||||
name: axis_descriptions
|
||||
description: Two-element array describing the contents of the two response
|
||||
axis fields. Description should be something like ['altitude', 'azimuth']
|
||||
or '['radius', 'theta'].
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: axis_1_axis_2
|
||||
exact_cardinality: 2
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
focal_depth_image:
|
||||
name: focal_depth_image
|
||||
description: 'Gray-scale image taken with same settings/parameters (e.g.,
|
||||
focal depth, wavelength) as data collection. Array format: [rows][columns].'
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__focal_depth_image
|
||||
required: false
|
||||
multivalued: false
|
||||
sign_map:
|
||||
name: sign_map
|
||||
description: Sine of the angle between the direction of the gradient in axis_1
|
||||
and axis_2.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__sign_map
|
||||
required: false
|
||||
multivalued: false
|
||||
vasculature_image:
|
||||
name: vasculature_image
|
||||
description: 'Gray-scale anatomical image of cortical surface. Array structure:
|
||||
[rows][columns]'
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__vasculature_image
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ImagingRetinotopy__axis_1_phase_map:
|
||||
name: ImagingRetinotopy__axis_1_phase_map
|
||||
|
|
@ -99,7 +98,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(axis_1_phase_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: axis_1_phase_map
|
||||
|
|
@ -131,7 +129,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(axis_1_power_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: axis_1_power_map
|
||||
|
|
@ -162,7 +159,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(axis_2_phase_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: axis_2_phase_map
|
||||
|
|
@ -194,7 +190,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(axis_2_power_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: axis_2_power_map
|
||||
|
|
@ -226,7 +221,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(focal_depth_image)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: focal_depth_image
|
||||
|
|
@ -267,7 +261,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(sign_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: sign_map
|
||||
|
|
@ -295,7 +288,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(vasculature_image)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: vasculature_image
|
||||
|
|
|
|||
|
|
@ -20,7 +20,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -33,7 +32,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
resolution:
|
||||
|
|
@ -73,7 +71,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -85,7 +82,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -96,7 +92,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -115,49 +110,49 @@ classes:
|
|||
dimension should always represent time. This can also be used to store binary
|
||||
data (e.g., image frames). This can also be a link to data stored in an
|
||||
external file.
|
||||
multivalued: false
|
||||
range: TimeSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
starting_time:
|
||||
name: starting_time
|
||||
description: Timestamp of the first sample in seconds. When timestamps are
|
||||
uniformly spaced, the timestamp of the first sample can be specified and
|
||||
all subsequent ones calculated from the sampling rate attribute.
|
||||
multivalued: false
|
||||
range: TimeSeries__starting_time
|
||||
required: false
|
||||
multivalued: false
|
||||
timestamps:
|
||||
name: timestamps
|
||||
description: Timestamps for samples stored in data, in seconds, relative to
|
||||
the common experiment master-clock stored in NWBFile.timestamps_reference_time.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: float64
|
||||
required: false
|
||||
multivalued: false
|
||||
control:
|
||||
name: control
|
||||
description: Numerical labels that apply to each time point in data for the
|
||||
purpose of querying and slicing data by these values. If present, the length
|
||||
of this array should be the same size as the first dimension of data.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: uint8
|
||||
required: false
|
||||
multivalued: false
|
||||
control_description:
|
||||
name: control_description
|
||||
description: Description of each control value. Must be present if control
|
||||
is present. If present, control_description[0] should describe time points
|
||||
where control == 0.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_control_values
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
sync:
|
||||
name: sync
|
||||
description: Lab-specific time and sync information as provided directly from
|
||||
|
|
@ -166,9 +161,9 @@ classes:
|
|||
This group will usually only be populated in TimeSeries that are stored
|
||||
external to the NWB file, in files storing raw data. Once timestamp data
|
||||
is calculated, the contents of 'sync' are mostly for archival purposes.
|
||||
multivalued: false
|
||||
range: TimeSeries__sync
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
TimeSeries__data:
|
||||
name: TimeSeries__data
|
||||
|
|
@ -179,7 +174,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -239,7 +233,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(starting_time)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: starting_time
|
||||
|
|
@ -267,7 +260,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(sync)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: sync
|
||||
|
|
@ -293,7 +285,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(Images)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -303,7 +294,7 @@ classes:
|
|||
image:
|
||||
name: image
|
||||
description: Images stored in this collection.
|
||||
multivalued: true
|
||||
range: Image
|
||||
required: true
|
||||
multivalued: true
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -29,22 +29,21 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: 1-D or 2-D array storing position or direction relative to some
|
||||
reference frame.
|
||||
multivalued: false
|
||||
range: SpatialSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
reference_frame:
|
||||
name: reference_frame
|
||||
description: Description defining what exactly 'straight-ahead' means.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
SpatialSeries__data:
|
||||
name: SpatialSeries__data
|
||||
|
|
@ -54,7 +53,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
|
|||
|
|
@ -21,7 +21,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
|
|||
|
|
@ -25,15 +25,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Recorded voltage data.
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -49,11 +48,15 @@ classes:
|
|||
- alias: num_samples
|
||||
electrodes:
|
||||
name: electrodes
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: DynamicTableRegion pointer to the electrodes that this time series
|
||||
was generated from.
|
||||
multivalued: false
|
||||
range: ElectricalSeries__electrodes
|
||||
range: DynamicTableRegion
|
||||
required: true
|
||||
multivalued: false
|
||||
channel_conversion:
|
||||
name: channel_conversion
|
||||
description: Channel-specific conversion factor. Multiply the data in the
|
||||
|
|
@ -65,26 +68,13 @@ classes:
|
|||
as native values generated by data acquisition systems. If this dataset
|
||||
is not present, then there is no channel-specific conversion factor, i.e.
|
||||
it is 1 for all channels.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_channels
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ElectricalSeries__electrodes:
|
||||
name: ElectricalSeries__electrodes
|
||||
description: DynamicTableRegion pointer to the electrodes that this time series
|
||||
was generated from.
|
||||
is_a: DynamicTableRegion
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes
|
||||
SpikeEventSeries:
|
||||
name: SpikeEventSeries
|
||||
description: 'Stores snapshots/snippets of recorded spike events (i.e., threshold
|
||||
|
|
@ -99,15 +89,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Spike waveforms.
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -124,12 +113,12 @@ classes:
|
|||
the common experiment master-clock stored in NWBFile.timestamps_reference_time.
|
||||
Timestamps are required for the events. Unlike for TimeSeries, timestamps
|
||||
are required for SpikeEventSeries and are thus re-specified here.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: float64
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
FeatureExtraction:
|
||||
name: FeatureExtraction
|
||||
|
|
@ -140,23 +129,21 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(FeatureExtraction)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
name: description
|
||||
description: Description of features (eg, ''PC1'') for each of the extracted
|
||||
features.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_features
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
features:
|
||||
name: features
|
||||
description: Multi-dimensional array of features extracted from each event.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
|
|
@ -164,36 +151,28 @@ classes:
|
|||
- alias: num_features
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
times:
|
||||
name: times
|
||||
description: Times of events that features correspond to (can be a link).
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: float64
|
||||
required: true
|
||||
multivalued: false
|
||||
electrodes:
|
||||
name: electrodes
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: DynamicTableRegion pointer to the electrodes that this time series
|
||||
was generated from.
|
||||
range: DynamicTableRegion
|
||||
required: true
|
||||
multivalued: false
|
||||
range: FeatureExtraction__electrodes
|
||||
required: true
|
||||
tree_root: true
|
||||
FeatureExtraction__electrodes:
|
||||
name: FeatureExtraction__electrodes
|
||||
description: DynamicTableRegion pointer to the electrodes that this time series
|
||||
was generated from.
|
||||
is_a: DynamicTableRegion
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes
|
||||
EventDetection:
|
||||
name: EventDetection
|
||||
description: Detected spike events from voltage trace(s).
|
||||
|
|
@ -202,37 +181,36 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(EventDetection)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
detection_method:
|
||||
name: detection_method
|
||||
description: Description of how events were detected, such as voltage threshold,
|
||||
or dV/dT threshold, as well as relevant values.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
source_idx:
|
||||
name: source_idx
|
||||
description: Indices (zero-based) into source ElectricalSeries::data array
|
||||
corresponding to time of event. ''description'' should define what is meant
|
||||
by time of event (e.g., .25 ms before action potential peak, zero-crossing
|
||||
time, etc). The index points to each event from the raw data.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: int32
|
||||
required: true
|
||||
multivalued: false
|
||||
times:
|
||||
name: times
|
||||
description: Timestamps of events, in seconds.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: float64
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
EventWaveform:
|
||||
name: EventWaveform
|
||||
|
|
@ -294,7 +272,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -310,9 +287,9 @@ classes:
|
|||
position:
|
||||
name: position
|
||||
description: stereotaxic or common framework coordinates
|
||||
multivalued: false
|
||||
range: ElectrodeGroup__position
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ElectrodeGroup__position:
|
||||
name: ElectrodeGroup__position
|
||||
|
|
@ -321,28 +298,27 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(position)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: position
|
||||
x:
|
||||
name: x
|
||||
description: x coordinate
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
y:
|
||||
name: y
|
||||
description: y coordinate
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
z:
|
||||
name: z
|
||||
description: z coordinate
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
ClusterWaveforms:
|
||||
name: ClusterWaveforms
|
||||
description: DEPRECATED The mean waveform shape, including standard deviation,
|
||||
|
|
@ -356,39 +332,38 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(ClusterWaveforms)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
waveform_filtering:
|
||||
name: waveform_filtering
|
||||
description: Filtering applied to data before generating mean/sd
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
waveform_mean:
|
||||
name: waveform_mean
|
||||
description: The mean waveform for each cluster, using the same indices for
|
||||
each wave as cluster numbers in the associated Clustering module (i.e, cluster
|
||||
3 is in array slot [3]). Waveforms corresponding to gaps in cluster sequence
|
||||
should be empty (e.g., zero- filled)
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_clusters
|
||||
- alias: num_samples
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
waveform_sd:
|
||||
name: waveform_sd
|
||||
description: Stdev of waveforms for each cluster, using the same indices as
|
||||
in mean
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_clusters
|
||||
- alias: num_samples
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
Clustering:
|
||||
name: Clustering
|
||||
|
|
@ -399,43 +374,42 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(Clustering)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
name: description
|
||||
description: Description of clusters or clustering, (e.g. cluster 0 is noise,
|
||||
clusters curated using Klusters, etc)
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
num:
|
||||
name: num
|
||||
description: Cluster number of each event
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: int32
|
||||
required: true
|
||||
multivalued: false
|
||||
peak_over_rms:
|
||||
name: peak_over_rms
|
||||
description: Maximum ratio of waveform peak to RMS on any channel in the cluster
|
||||
(provides a basic clustering metric).
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_clusters
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
times:
|
||||
name: times
|
||||
description: Times of clustered events, in seconds. This may be a link to
|
||||
times field in associated FeatureExtraction module.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: float64
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -22,55 +22,62 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
start_time:
|
||||
name: start_time
|
||||
description: Start time of epoch, in seconds.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
stop_time:
|
||||
name: stop_time
|
||||
description: Stop time of epoch, in seconds.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
tags:
|
||||
name: tags
|
||||
description: User-defined tags that identify or categorize events.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tags_index:
|
||||
name: tags_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index for tags.
|
||||
multivalued: false
|
||||
range: TimeIntervals__tags_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
timeseries:
|
||||
name: timeseries
|
||||
description: An index into a TimeSeries object.
|
||||
multivalued: false
|
||||
range: TimeIntervals__timeseries
|
||||
required: false
|
||||
multivalued: false
|
||||
timeseries_index:
|
||||
name: timeseries_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index for timeseries.
|
||||
multivalued: false
|
||||
range: TimeIntervals__timeseries_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
TimeIntervals__tags_index:
|
||||
name: TimeIntervals__tags_index
|
||||
description: Index for tags.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(tags_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: tags_index
|
||||
TimeIntervals__timeseries:
|
||||
name: TimeIntervals__timeseries
|
||||
description: An index into a TimeSeries object.
|
||||
|
|
@ -79,7 +86,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(timeseries)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: timeseries
|
||||
|
|
@ -88,31 +94,19 @@ classes:
|
|||
description: Start index into the TimeSeries 'data' and 'timestamp' datasets
|
||||
of the referenced TimeSeries. The first dimension of those arrays is always
|
||||
time.
|
||||
multivalued: false
|
||||
range: int32
|
||||
required: false
|
||||
multivalued: false
|
||||
count:
|
||||
name: count
|
||||
description: Number of data samples available in this time series, during
|
||||
this epoch.
|
||||
multivalued: false
|
||||
range: int32
|
||||
required: false
|
||||
multivalued: false
|
||||
timeseries:
|
||||
name: timeseries
|
||||
description: the TimeSeries that this index applies to.
|
||||
multivalued: false
|
||||
range: TimeSeries
|
||||
required: false
|
||||
TimeIntervals__timeseries_index:
|
||||
name: TimeIntervals__timeseries_index
|
||||
description: Index for timeseries.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(timeseries_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: timeseries_index
|
||||
multivalued: false
|
||||
|
|
|
|||
|
|
@ -28,7 +28,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
notes:
|
||||
|
|
@ -45,7 +44,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(root)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: root
|
||||
|
|
@ -63,36 +61,36 @@ classes:
|
|||
The file can be created after the experiment was run, so this may differ
|
||||
from the experiment start time. Each modification to the nwb file adds a
|
||||
new entry to the array.'
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_modifications
|
||||
range: isodatetime
|
||||
required: true
|
||||
multivalued: false
|
||||
identifier:
|
||||
name: identifier
|
||||
description: A unique text identifier for the file. For example, concatenated
|
||||
lab name, file creation date/time and experimentalist, or a hash of these
|
||||
and/or other values. The goal is that the string should be unique to all
|
||||
other files.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
session_description:
|
||||
name: session_description
|
||||
description: A description of the experimental session and data in the file.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
session_start_time:
|
||||
name: session_start_time
|
||||
description: 'Date and time of the experiment/session start. The date is stored
|
||||
in UTC with local timezone offset as ISO 8601 extended formatted string:
|
||||
2018-09-28T14:43:54.123+02:00. Dates stored in UTC end in "Z" with no timezone
|
||||
offset. Date accuracy is up to milliseconds.'
|
||||
multivalued: false
|
||||
range: isodatetime
|
||||
required: true
|
||||
multivalued: false
|
||||
timestamps_reference_time:
|
||||
name: timestamps_reference_time
|
||||
description: 'Date and time corresponding to time zero of all timestamps.
|
||||
|
|
@ -100,9 +98,9 @@ classes:
|
|||
formatted string: 2018-09-28T14:43:54.123+02:00. Dates stored in UTC end
|
||||
in "Z" with no timezone offset. Date accuracy is up to milliseconds. All
|
||||
times stored in the file use this time as reference (i.e., time zero).'
|
||||
multivalued: false
|
||||
range: isodatetime
|
||||
required: true
|
||||
multivalued: false
|
||||
acquisition:
|
||||
name: acquisition
|
||||
description: Data streams recorded from the system, including ephys, ophys,
|
||||
|
|
@ -179,9 +177,9 @@ classes:
|
|||
an experiment. The stimulus group is organized so that one version of template
|
||||
stimuli can be stored and these be used multiple times. These templates
|
||||
can exist in the present file or can be linked to a remote library file.
|
||||
multivalued: false
|
||||
range: NWBFile__stimulus
|
||||
required: true
|
||||
multivalued: false
|
||||
general:
|
||||
name: general
|
||||
description: Experimental metadata, including protocol, notes and description
|
||||
|
|
@ -199,9 +197,9 @@ classes:
|
|||
datasets. All entries in the below table are to be included when data is
|
||||
present. Unused groups (e.g., intracellular_ephys in an optophysiology experiment)
|
||||
should not be created unless there is data to store within them.
|
||||
multivalued: false
|
||||
range: NWBFile__general
|
||||
required: true
|
||||
multivalued: false
|
||||
intervals:
|
||||
name: intervals
|
||||
description: Experimental intervals, whether that be logically distinct sub-experiments
|
||||
|
|
@ -219,9 +217,9 @@ classes:
|
|||
units:
|
||||
name: units
|
||||
description: Data about sorted spike units.
|
||||
multivalued: false
|
||||
range: Units
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
NWBFile__stimulus:
|
||||
name: NWBFile__stimulus
|
||||
|
|
@ -241,7 +239,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(stimulus)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: stimulus
|
||||
|
|
@ -284,129 +281,128 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(general)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: general
|
||||
data_collection:
|
||||
name: data_collection
|
||||
description: Notes about data collection and analysis.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
experiment_description:
|
||||
name: experiment_description
|
||||
description: General description of the experiment.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
experimenter:
|
||||
name: experimenter
|
||||
description: Name of person(s) who performed the experiment. Can also specify
|
||||
roles of different people involved.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_experimenters
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
institution:
|
||||
name: institution
|
||||
description: Institution(s) where experiment was performed.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
keywords:
|
||||
name: keywords
|
||||
description: Terms to search over.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_keywords
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
lab:
|
||||
name: lab
|
||||
description: Laboratory where experiment was performed.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
notes:
|
||||
name: notes
|
||||
description: Notes about the experiment.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
pharmacology:
|
||||
name: pharmacology
|
||||
description: Description of drugs used, including how and when they were administered.
|
||||
Anesthesia(s), painkiller(s), etc., plus dosage, concentration, etc.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
protocol:
|
||||
name: protocol
|
||||
description: Experimental protocol, if applicable. e.g., include IACUC protocol
|
||||
number.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
related_publications:
|
||||
name: related_publications
|
||||
description: Publication information. PMID, DOI, URL, etc.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_publications
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
session_id:
|
||||
name: session_id
|
||||
description: Lab-specific ID for the session.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
slices:
|
||||
name: slices
|
||||
description: Description of slices, including information about preparation
|
||||
thickness, orientation, temperature, and bath solution.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
source_script:
|
||||
name: source_script
|
||||
description: Script file or link to public source code used to create this
|
||||
NWB file.
|
||||
multivalued: false
|
||||
range: NWBFile__general__source_script
|
||||
required: false
|
||||
multivalued: false
|
||||
stimulus:
|
||||
name: stimulus
|
||||
description: Notes about stimuli, such as how and where they were presented.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
surgery:
|
||||
name: surgery
|
||||
description: Narrative description about surgery/surgeries, including date(s)
|
||||
and who performed surgery.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
virus:
|
||||
name: virus
|
||||
description: Information about virus(es) used in experiments, including virus
|
||||
ID, source, date made, injection location, volume, etc.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
lab_meta_data:
|
||||
name: lab_meta_data
|
||||
description: Place-holder than can be extended so that lab-specific meta-data
|
||||
can be placed in /general.
|
||||
multivalued: true
|
||||
range: LabMetaData
|
||||
required: false
|
||||
multivalued: true
|
||||
devices:
|
||||
name: devices
|
||||
description: Description of hardware devices used during experiment, e.g.,
|
||||
|
|
@ -420,21 +416,21 @@ classes:
|
|||
name: subject
|
||||
description: Information about the animal or person from which the data was
|
||||
measured.
|
||||
multivalued: false
|
||||
range: Subject
|
||||
required: false
|
||||
multivalued: false
|
||||
extracellular_ephys:
|
||||
name: extracellular_ephys
|
||||
description: Metadata related to extracellular electrophysiology.
|
||||
multivalued: false
|
||||
range: NWBFile__general__extracellular_ephys
|
||||
required: false
|
||||
multivalued: false
|
||||
intracellular_ephys:
|
||||
name: intracellular_ephys
|
||||
description: Metadata related to intracellular electrophysiology.
|
||||
multivalued: false
|
||||
range: NWBFile__general__intracellular_ephys
|
||||
required: false
|
||||
multivalued: false
|
||||
optogenetics:
|
||||
name: optogenetics
|
||||
description: Metadata describing optogenetic stimuluation.
|
||||
|
|
@ -459,7 +455,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(source_script)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: source_script
|
||||
|
|
@ -478,22 +473,21 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(extracellular_ephys)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: extracellular_ephys
|
||||
electrode_group:
|
||||
name: electrode_group
|
||||
description: Physical group of electrodes.
|
||||
multivalued: true
|
||||
range: ElectrodeGroup
|
||||
required: false
|
||||
multivalued: true
|
||||
electrodes:
|
||||
name: electrodes
|
||||
description: A table of all electrodes (i.e. channels) used for recording.
|
||||
multivalued: false
|
||||
range: NWBFile__general__extracellular_ephys__electrodes
|
||||
required: false
|
||||
multivalued: false
|
||||
NWBFile__general__extracellular_ephys__electrodes:
|
||||
name: NWBFile__general__extracellular_ephys__electrodes
|
||||
description: A table of all electrodes (i.e. channels) used for recording.
|
||||
|
|
@ -502,72 +496,116 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes
|
||||
x:
|
||||
name: x
|
||||
description: x coordinate of the channel location in the brain (+x is posterior).
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
y:
|
||||
name: y
|
||||
description: y coordinate of the channel location in the brain (+y is inferior).
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
z:
|
||||
name: z
|
||||
description: z coordinate of the channel location in the brain (+z is right).
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
imp:
|
||||
name: imp
|
||||
description: Impedance of the channel.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
location:
|
||||
name: location
|
||||
description: Location of the electrode (channel). Specify the area, layer,
|
||||
comments on estimation of area/layer, stereotaxic coordinates if in vivo,
|
||||
etc. Use standard atlas names for anatomical regions when possible.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
filtering:
|
||||
name: filtering
|
||||
description: Description of hardware filtering.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
group:
|
||||
name: group
|
||||
description: Reference to the ElectrodeGroup this electrode is a part of.
|
||||
multivalued: true
|
||||
range: ElectrodeGroup
|
||||
required: true
|
||||
multivalued: true
|
||||
group_name:
|
||||
name: group_name
|
||||
description: Name of the ElectrodeGroup this electrode is a part of.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
rel_x:
|
||||
name: rel_x
|
||||
description: x coordinate in electrode group
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
rel_y:
|
||||
name: rel_y
|
||||
description: y coordinate in electrode group
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
rel_z:
|
||||
name: rel_z
|
||||
description: z coordinate in electrode group
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
reference:
|
||||
name: reference
|
||||
description: Description of the reference used for this electrode.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
NWBFile__general__intracellular_ephys:
|
||||
name: NWBFile__general__intracellular_ephys
|
||||
description: Metadata related to intracellular electrophysiology.
|
||||
|
|
@ -575,7 +613,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(intracellular_ephys)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: intracellular_ephys
|
||||
|
|
@ -584,21 +621,21 @@ classes:
|
|||
description: Description of filtering used. Includes filtering type and parameters,
|
||||
frequency fall-off, etc. If this changes between TimeSeries, filter description
|
||||
should be stored as a text attribute for each TimeSeries.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
intracellular_electrode:
|
||||
name: intracellular_electrode
|
||||
description: An intracellular electrode.
|
||||
multivalued: true
|
||||
range: IntracellularElectrode
|
||||
required: false
|
||||
multivalued: true
|
||||
sweep_table:
|
||||
name: sweep_table
|
||||
description: The table which groups different PatchClampSeries together.
|
||||
multivalued: false
|
||||
range: SweepTable
|
||||
required: false
|
||||
multivalued: false
|
||||
LabMetaData:
|
||||
name: LabMetaData
|
||||
description: Lab-specific meta-data.
|
||||
|
|
@ -606,7 +643,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -617,57 +653,56 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
age:
|
||||
name: age
|
||||
description: Age of subject. Can be supplied instead of 'date_of_birth'.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
date_of_birth:
|
||||
name: date_of_birth
|
||||
description: Date of birth of subject. Can be supplied instead of 'age'.
|
||||
multivalued: false
|
||||
range: isodatetime
|
||||
required: false
|
||||
multivalued: false
|
||||
description:
|
||||
name: description
|
||||
description: Description of subject and where subject came from (e.g., breeder,
|
||||
if animal).
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
genotype:
|
||||
name: genotype
|
||||
description: Genetic strain. If absent, assume Wild Type (WT).
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
sex:
|
||||
name: sex
|
||||
description: Gender of subject.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
species:
|
||||
name: species
|
||||
description: Species of subject.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
subject_id:
|
||||
name: subject_id
|
||||
description: ID of animal/person used/participating in experiment (lab convention).
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
weight:
|
||||
name: weight
|
||||
description: Weight at time of experiment, at time of surgery and at other
|
||||
important times.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -23,7 +23,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
stimulus_description:
|
||||
|
|
@ -37,16 +36,16 @@ classes:
|
|||
data:
|
||||
name: data
|
||||
description: Recorded voltage or current.
|
||||
multivalued: false
|
||||
range: PatchClampSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
gain:
|
||||
name: gain
|
||||
description: Gain of the recording, in units Volt/Amp (v-clamp) or Volt/Volt
|
||||
(c-clamp).
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
PatchClampSeries__data:
|
||||
name: PatchClampSeries__data
|
||||
|
|
@ -55,7 +54,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -80,33 +78,32 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Recorded voltage.
|
||||
multivalued: false
|
||||
range: CurrentClampSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
bias_current:
|
||||
name: bias_current
|
||||
description: Bias current, in amps.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
bridge_balance:
|
||||
name: bridge_balance
|
||||
description: Bridge balance, in ohms.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
capacitance_compensation:
|
||||
name: capacitance_compensation
|
||||
description: Capacitance compensation, in farads.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
CurrentClampSeries__data:
|
||||
name: CurrentClampSeries__data
|
||||
|
|
@ -115,7 +112,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -139,27 +135,26 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
bias_current:
|
||||
name: bias_current
|
||||
description: Bias current, in amps, fixed to 0.0.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
bridge_balance:
|
||||
name: bridge_balance
|
||||
description: Bridge balance, in ohms, fixed to 0.0.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
capacitance_compensation:
|
||||
name: capacitance_compensation
|
||||
description: Capacitance compensation, in farads, fixed to 0.0.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
CurrentClampStimulusSeries:
|
||||
name: CurrentClampStimulusSeries
|
||||
|
|
@ -168,15 +163,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Stimulus current applied.
|
||||
multivalued: false
|
||||
range: CurrentClampStimulusSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
CurrentClampStimulusSeries__data:
|
||||
name: CurrentClampStimulusSeries__data
|
||||
|
|
@ -185,7 +179,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -208,57 +201,56 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Recorded current.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
capacitance_fast:
|
||||
name: capacitance_fast
|
||||
description: Fast capacitance, in farads.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__capacitance_fast
|
||||
required: false
|
||||
multivalued: false
|
||||
capacitance_slow:
|
||||
name: capacitance_slow
|
||||
description: Slow capacitance, in farads.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__capacitance_slow
|
||||
required: false
|
||||
multivalued: false
|
||||
resistance_comp_bandwidth:
|
||||
name: resistance_comp_bandwidth
|
||||
description: Resistance compensation bandwidth, in hertz.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__resistance_comp_bandwidth
|
||||
required: false
|
||||
multivalued: false
|
||||
resistance_comp_correction:
|
||||
name: resistance_comp_correction
|
||||
description: Resistance compensation correction, in percent.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__resistance_comp_correction
|
||||
required: false
|
||||
multivalued: false
|
||||
resistance_comp_prediction:
|
||||
name: resistance_comp_prediction
|
||||
description: Resistance compensation prediction, in percent.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__resistance_comp_prediction
|
||||
required: false
|
||||
multivalued: false
|
||||
whole_cell_capacitance_comp:
|
||||
name: whole_cell_capacitance_comp
|
||||
description: Whole cell capacitance compensation, in farads.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__whole_cell_capacitance_comp
|
||||
required: false
|
||||
multivalued: false
|
||||
whole_cell_series_resistance_comp:
|
||||
name: whole_cell_series_resistance_comp
|
||||
description: Whole cell series resistance compensation, in ohms.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__whole_cell_series_resistance_comp
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
VoltageClampSeries__data:
|
||||
name: VoltageClampSeries__data
|
||||
|
|
@ -267,7 +259,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -288,7 +279,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(capacitance_fast)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: capacitance_fast
|
||||
|
|
@ -307,7 +297,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(capacitance_slow)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: capacitance_slow
|
||||
|
|
@ -326,7 +315,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(resistance_comp_bandwidth)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: resistance_comp_bandwidth
|
||||
|
|
@ -346,7 +334,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(resistance_comp_correction)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: resistance_comp_correction
|
||||
|
|
@ -366,7 +353,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(resistance_comp_prediction)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: resistance_comp_prediction
|
||||
|
|
@ -386,7 +372,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(whole_cell_capacitance_comp)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: whole_cell_capacitance_comp
|
||||
|
|
@ -406,7 +391,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(whole_cell_series_resistance_comp)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: whole_cell_series_resistance_comp
|
||||
|
|
@ -426,15 +410,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Stimulus voltage applied.
|
||||
multivalued: false
|
||||
range: VoltageClampStimulusSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
VoltageClampStimulusSeries__data:
|
||||
name: VoltageClampStimulusSeries__data
|
||||
|
|
@ -443,7 +426,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -464,53 +446,52 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
name: description
|
||||
description: Description of electrode (e.g., whole-cell, sharp, etc.).
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
filtering:
|
||||
name: filtering
|
||||
description: Electrode specific filtering.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
initial_access_resistance:
|
||||
name: initial_access_resistance
|
||||
description: Initial access resistance.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
location:
|
||||
name: location
|
||||
description: Location of the electrode. Specify the area, layer, comments
|
||||
on estimation of area/layer, stereotaxic coordinates if in vivo, etc. Use
|
||||
standard atlas names for anatomical regions when possible.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
resistance:
|
||||
name: resistance
|
||||
description: Electrode resistance, in ohms.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
seal:
|
||||
name: seal
|
||||
description: Information about seal used for recording.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
slice:
|
||||
name: slice
|
||||
description: Information about slice used for recording.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
SweepTable:
|
||||
name: SweepTable
|
||||
|
|
@ -519,35 +500,31 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
sweep_number:
|
||||
name: sweep_number
|
||||
description: Sweep number of the PatchClampSeries in that row.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: uint32
|
||||
required: true
|
||||
multivalued: false
|
||||
series:
|
||||
name: series
|
||||
description: The PatchClampSeries with the sweep number in that row.
|
||||
multivalued: true
|
||||
range: PatchClampSeries
|
||||
required: true
|
||||
multivalued: true
|
||||
series_index:
|
||||
name: series_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index for series.
|
||||
range: VectorIndex
|
||||
required: true
|
||||
multivalued: false
|
||||
range: SweepTable__series_index
|
||||
required: true
|
||||
tree_root: true
|
||||
SweepTable__series_index:
|
||||
name: SweepTable__series_index
|
||||
description: Index for series.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(series_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: series_index
|
||||
|
|
|
|||
|
|
@ -20,7 +20,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -31,7 +30,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -42,7 +40,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -58,15 +55,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Binary data representing images across frames.
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: false
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -82,12 +78,12 @@ classes:
|
|||
dimension:
|
||||
name: dimension
|
||||
description: Number of pixels on x, y, (and z) axes.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: rank
|
||||
range: int32
|
||||
required: false
|
||||
multivalued: false
|
||||
external_file:
|
||||
name: external_file
|
||||
description: Paths to one or more external file(s). The field is only present
|
||||
|
|
@ -95,18 +91,18 @@ classes:
|
|||
in the file system as one or more image file(s). This field should NOT be
|
||||
used if the image is stored in another NWB file and that file is linked
|
||||
to this file.
|
||||
multivalued: false
|
||||
range: ImageSeries__external_file
|
||||
required: false
|
||||
multivalued: false
|
||||
format:
|
||||
name: format
|
||||
description: Format of image. If this is 'external', then the attribute 'external_file'
|
||||
contains the path information to the image files. If this is 'raw', then
|
||||
the raw (single-channel) binary data is stored in the 'data' dataset. If
|
||||
this attribute is not present, then the default format='raw' case is assumed.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ImageSeries__external_file:
|
||||
name: ImageSeries__external_file
|
||||
|
|
@ -118,7 +114,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(external_file)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: external_file
|
||||
|
|
@ -154,7 +149,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -169,21 +163,20 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
distance:
|
||||
name: distance
|
||||
description: Distance from camera/monitor to target/eye.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
field_of_view:
|
||||
name: field_of_view
|
||||
description: Width, height and depth of image, or imaged area, in meters.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -196,9 +189,9 @@ classes:
|
|||
data:
|
||||
name: data
|
||||
description: Images presented to subject, either grayscale or RGB
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -216,9 +209,9 @@ classes:
|
|||
name: orientation
|
||||
description: Description of image relative to some reference frame (e.g.,
|
||||
which way is up). Must also specify frame of reference.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
IndexSeries:
|
||||
name: IndexSeries
|
||||
|
|
@ -232,16 +225,15 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Index of the frame in the referenced ImageSeries.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: int32
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -19,53 +19,67 @@ types:
|
|||
float32:
|
||||
name: float32
|
||||
typeof: float
|
||||
repr: np.float32
|
||||
float64:
|
||||
name: float64
|
||||
typeof: double
|
||||
repr: np.float64
|
||||
long:
|
||||
name: long
|
||||
typeof: integer
|
||||
repr: np.longlong
|
||||
int64:
|
||||
name: int64
|
||||
typeof: integer
|
||||
repr: np.int64
|
||||
int:
|
||||
name: int
|
||||
typeof: integer
|
||||
int32:
|
||||
name: int32
|
||||
typeof: integer
|
||||
repr: np.int32
|
||||
int16:
|
||||
name: int16
|
||||
typeof: integer
|
||||
repr: np.int16
|
||||
short:
|
||||
name: short
|
||||
typeof: integer
|
||||
repr: np.int16
|
||||
int8:
|
||||
name: int8
|
||||
typeof: integer
|
||||
repr: np.int8
|
||||
uint:
|
||||
name: uint
|
||||
typeof: integer
|
||||
repr: np.uint64
|
||||
minimum_value: 0
|
||||
uint32:
|
||||
name: uint32
|
||||
typeof: integer
|
||||
repr: np.uint32
|
||||
minimum_value: 0
|
||||
uint16:
|
||||
name: uint16
|
||||
typeof: integer
|
||||
repr: np.uint16
|
||||
minimum_value: 0
|
||||
uint8:
|
||||
name: uint8
|
||||
typeof: integer
|
||||
repr: np.uint8
|
||||
minimum_value: 0
|
||||
uint64:
|
||||
name: uint64
|
||||
typeof: integer
|
||||
repr: np.uint64
|
||||
minimum_value: 0
|
||||
numeric:
|
||||
name: numeric
|
||||
typeof: float
|
||||
repr: np.number
|
||||
text:
|
||||
name: text
|
||||
typeof: string
|
||||
|
|
@ -87,58 +101,7 @@ types:
|
|||
isodatetime:
|
||||
name: isodatetime
|
||||
typeof: datetime
|
||||
enums:
|
||||
FlatDType:
|
||||
name: FlatDType
|
||||
permissible_values:
|
||||
float:
|
||||
text: float
|
||||
float32:
|
||||
text: float32
|
||||
double:
|
||||
text: double
|
||||
float64:
|
||||
text: float64
|
||||
long:
|
||||
text: long
|
||||
int64:
|
||||
text: int64
|
||||
int:
|
||||
text: int
|
||||
int32:
|
||||
text: int32
|
||||
int16:
|
||||
text: int16
|
||||
short:
|
||||
text: short
|
||||
int8:
|
||||
text: int8
|
||||
uint:
|
||||
text: uint
|
||||
uint32:
|
||||
text: uint32
|
||||
uint16:
|
||||
text: uint16
|
||||
uint8:
|
||||
text: uint8
|
||||
uint64:
|
||||
text: uint64
|
||||
numeric:
|
||||
text: numeric
|
||||
text:
|
||||
text: text
|
||||
utf:
|
||||
text: utf
|
||||
utf8:
|
||||
text: utf8
|
||||
utf_8:
|
||||
text: utf_8
|
||||
ascii:
|
||||
text: ascii
|
||||
bool:
|
||||
text: bool
|
||||
isodatetime:
|
||||
text: isodatetime
|
||||
repr: np.datetime64
|
||||
classes:
|
||||
AnyType:
|
||||
name: AnyType
|
||||
|
|
|
|||
|
|
@ -30,33 +30,32 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Values of each feature at each time.
|
||||
multivalued: false
|
||||
range: AbstractFeatureSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
feature_units:
|
||||
name: feature_units
|
||||
description: Units of each feature.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_features
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
features:
|
||||
name: features
|
||||
description: Description of the features represented in TimeSeries::data.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_features
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
AbstractFeatureSeries__data:
|
||||
name: AbstractFeatureSeries__data
|
||||
|
|
@ -65,7 +64,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -96,18 +94,17 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Annotations made during an experiment.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
IntervalSeries:
|
||||
name: IntervalSeries
|
||||
|
|
@ -122,18 +119,17 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Use values >0 if interval started, <0 if interval ended.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: int8
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
DecompositionSeries:
|
||||
name: DecompositionSeries
|
||||
|
|
@ -142,28 +138,27 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Data decomposed into frequency bands.
|
||||
multivalued: false
|
||||
range: DecompositionSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
metric:
|
||||
name: metric
|
||||
description: The metric used, e.g. phase, amplitude, power.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
bands:
|
||||
name: bands
|
||||
description: Table for describing the bands that this series was generated
|
||||
from. There should be one row in this table for each band.
|
||||
multivalued: false
|
||||
range: DecompositionSeries__bands
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
DecompositionSeries__data:
|
||||
name: DecompositionSeries__data
|
||||
|
|
@ -172,7 +167,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -199,20 +193,22 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(bands)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: bands
|
||||
band_name:
|
||||
name: band_name
|
||||
description: Name of the band, e.g. theta.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
band_limits:
|
||||
name: band_limits
|
||||
description: Low and high limit of each band in Hz. If it is a Gaussian filter,
|
||||
use 2 SD on either side of the center.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_bands
|
||||
|
|
@ -220,24 +216,25 @@ classes:
|
|||
exact_cardinality: 2
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
band_mean:
|
||||
name: band_mean
|
||||
description: The mean Gaussian filters, in Hz.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_bands
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
band_stdev:
|
||||
name: band_stdev
|
||||
description: The standard deviation of Gaussian filters, in Hz.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_bands
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
Units:
|
||||
name: Units
|
||||
description: Data about spiking units. Event times of observed units (e.g. cell,
|
||||
|
|
@ -247,31 +244,37 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(Units)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
spike_times_index:
|
||||
name: spike_times_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into the spike_times dataset.
|
||||
multivalued: false
|
||||
range: Units__spike_times_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
spike_times:
|
||||
name: spike_times
|
||||
description: Spike times for each unit.
|
||||
multivalued: false
|
||||
range: Units__spike_times
|
||||
required: false
|
||||
multivalued: false
|
||||
obs_intervals_index:
|
||||
name: obs_intervals_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into the obs_intervals dataset.
|
||||
multivalued: false
|
||||
range: Units__obs_intervals_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
obs_intervals:
|
||||
name: obs_intervals
|
||||
description: Observation intervals for each unit.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_intervals
|
||||
|
|
@ -279,29 +282,39 @@ classes:
|
|||
exact_cardinality: 2
|
||||
range: float64
|
||||
required: false
|
||||
multivalued: false
|
||||
electrodes_index:
|
||||
name: electrodes_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into electrodes.
|
||||
multivalued: false
|
||||
range: Units__electrodes_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
electrodes:
|
||||
name: electrodes
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Electrode that each spike unit came from, specified using a DynamicTableRegion.
|
||||
multivalued: false
|
||||
range: Units__electrodes
|
||||
range: DynamicTableRegion
|
||||
required: false
|
||||
multivalued: false
|
||||
electrode_group:
|
||||
name: electrode_group
|
||||
description: Electrode group that each spike unit came from.
|
||||
multivalued: true
|
||||
range: ElectrodeGroup
|
||||
required: false
|
||||
multivalued: true
|
||||
waveform_mean:
|
||||
name: waveform_mean
|
||||
description: Spike waveform mean for each spike unit.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -315,9 +328,9 @@ classes:
|
|||
waveform_sd:
|
||||
name: waveform_sd
|
||||
description: Spike waveform standard deviation for each spike unit.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -329,18 +342,6 @@ classes:
|
|||
- alias: num_samples
|
||||
- alias: num_electrodes
|
||||
tree_root: true
|
||||
Units__spike_times_index:
|
||||
name: Units__spike_times_index
|
||||
description: Index into the spike_times dataset.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(spike_times_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: spike_times_index
|
||||
Units__spike_times:
|
||||
name: Units__spike_times
|
||||
description: Spike times for each unit.
|
||||
|
|
@ -349,7 +350,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(spike_times)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: spike_times
|
||||
|
|
@ -361,39 +361,3 @@ classes:
|
|||
if the acquisition time series was smoothed/interpolated and it is possible
|
||||
for the spike time to be between samples.
|
||||
range: float64
|
||||
Units__obs_intervals_index:
|
||||
name: Units__obs_intervals_index
|
||||
description: Index into the obs_intervals dataset.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(obs_intervals_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: obs_intervals_index
|
||||
Units__electrodes_index:
|
||||
name: Units__electrodes_index
|
||||
description: Index into electrodes.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes_index
|
||||
Units__electrodes:
|
||||
name: Units__electrodes
|
||||
description: Electrode that each spike unit came from, specified using a DynamicTableRegion.
|
||||
is_a: DynamicTableRegion
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes
|
||||
|
|
|
|||
|
|
@ -21,18 +21,17 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Applied power for optogenetic stimulus, in watts.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
OptogeneticStimulusSite:
|
||||
name: OptogeneticStimulusSite
|
||||
|
|
@ -41,27 +40,26 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
name: description
|
||||
description: Description of stimulation site.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
excitation_lambda:
|
||||
name: excitation_lambda
|
||||
description: Excitation wavelength, in nm.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
location:
|
||||
name: location
|
||||
description: Location of the stimulation site. Specify the area, layer, comments
|
||||
on estimation of area/layer, stereotaxic coordinates if in vivo, etc. Use
|
||||
standard atlas names for anatomical regions when possible.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -23,7 +23,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
pmt_gain:
|
||||
|
|
@ -39,9 +38,9 @@ classes:
|
|||
field_of_view:
|
||||
name: field_of_view
|
||||
description: Width, height and depth of image, or imaged area, in meters.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -60,15 +59,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Signals from ROIs.
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -79,25 +77,16 @@ classes:
|
|||
- alias: num_rois
|
||||
rois:
|
||||
name: rois
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: DynamicTableRegion referencing into an ROITable containing information
|
||||
on the ROIs stored in this timeseries.
|
||||
range: DynamicTableRegion
|
||||
required: true
|
||||
multivalued: false
|
||||
range: RoiResponseSeries__rois
|
||||
required: true
|
||||
tree_root: true
|
||||
RoiResponseSeries__rois:
|
||||
name: RoiResponseSeries__rois
|
||||
description: DynamicTableRegion referencing into an ROITable containing information
|
||||
on the ROIs stored in this timeseries.
|
||||
is_a: DynamicTableRegion
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(rois)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: rois
|
||||
DfOverF:
|
||||
name: DfOverF
|
||||
description: dF/F information about a region of interest (ROI). Storage hierarchy
|
||||
|
|
@ -154,56 +143,51 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
image_mask:
|
||||
name: image_mask
|
||||
description: ROI masks for each ROI. Each image mask is the size of the original
|
||||
imaging plane (or volume) and members of the ROI are finite non-zero.
|
||||
multivalued: false
|
||||
range: AnyType
|
||||
range: PlaneSegmentation__image_mask
|
||||
required: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
- alias: num_roi
|
||||
- alias: num_x
|
||||
- alias: num_y
|
||||
- array:
|
||||
dimensions:
|
||||
- alias: num_roi
|
||||
- alias: num_x
|
||||
- alias: num_y
|
||||
- alias: num_z
|
||||
multivalued: false
|
||||
pixel_mask_index:
|
||||
name: pixel_mask_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into pixel_mask.
|
||||
multivalued: false
|
||||
range: PlaneSegmentation__pixel_mask_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
pixel_mask:
|
||||
name: pixel_mask
|
||||
description: 'Pixel masks for each ROI: a list of indices and weights for
|
||||
the ROI. Pixel masks are concatenated and parsing of this dataset is maintained
|
||||
by the PlaneSegmentation'
|
||||
multivalued: false
|
||||
range: PlaneSegmentation__pixel_mask
|
||||
required: false
|
||||
multivalued: false
|
||||
voxel_mask_index:
|
||||
name: voxel_mask_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into voxel_mask.
|
||||
multivalued: false
|
||||
range: PlaneSegmentation__voxel_mask_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
voxel_mask:
|
||||
name: voxel_mask
|
||||
description: 'Voxel masks for each ROI: a list of indices and weights for
|
||||
the ROI. Voxel masks are concatenated and parsing of this dataset is maintained
|
||||
by the PlaneSegmentation'
|
||||
multivalued: false
|
||||
range: PlaneSegmentation__voxel_mask
|
||||
required: false
|
||||
multivalued: false
|
||||
reference_images:
|
||||
name: reference_images
|
||||
description: Image stacks that the segmentation masks apply to.
|
||||
|
|
@ -213,18 +197,18 @@ classes:
|
|||
any_of:
|
||||
- range: ImageSeries
|
||||
tree_root: true
|
||||
PlaneSegmentation__pixel_mask_index:
|
||||
name: PlaneSegmentation__pixel_mask_index
|
||||
description: Index into pixel_mask.
|
||||
is_a: VectorIndex
|
||||
PlaneSegmentation__image_mask:
|
||||
name: PlaneSegmentation__image_mask
|
||||
description: ROI masks for each ROI. Each image mask is the size of the original
|
||||
imaging plane (or volume) and members of the ROI are finite non-zero.
|
||||
is_a: VectorData
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(pixel_mask_index)
|
||||
identifier: true
|
||||
ifabsent: string(image_mask)
|
||||
range: string
|
||||
required: true
|
||||
equals_string: pixel_mask_index
|
||||
equals_string: image_mask
|
||||
PlaneSegmentation__pixel_mask:
|
||||
name: PlaneSegmentation__pixel_mask
|
||||
description: 'Pixel masks for each ROI: a list of indices and weights for the
|
||||
|
|
@ -235,40 +219,27 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(pixel_mask)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: pixel_mask
|
||||
x:
|
||||
name: x
|
||||
description: Pixel x-coordinate.
|
||||
multivalued: false
|
||||
range: uint32
|
||||
required: false
|
||||
multivalued: false
|
||||
y:
|
||||
name: y
|
||||
description: Pixel y-coordinate.
|
||||
multivalued: false
|
||||
range: uint32
|
||||
required: false
|
||||
multivalued: false
|
||||
weight:
|
||||
name: weight
|
||||
description: Weight of the pixel.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
PlaneSegmentation__voxel_mask_index:
|
||||
name: PlaneSegmentation__voxel_mask_index
|
||||
description: Index into voxel_mask.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(voxel_mask_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: voxel_mask_index
|
||||
multivalued: false
|
||||
PlaneSegmentation__voxel_mask:
|
||||
name: PlaneSegmentation__voxel_mask
|
||||
description: 'Voxel masks for each ROI: a list of indices and weights for the
|
||||
|
|
@ -279,34 +250,33 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(voxel_mask)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: voxel_mask
|
||||
x:
|
||||
name: x
|
||||
description: Voxel x-coordinate.
|
||||
multivalued: false
|
||||
range: uint32
|
||||
required: false
|
||||
multivalued: false
|
||||
y:
|
||||
name: y
|
||||
description: Voxel y-coordinate.
|
||||
multivalued: false
|
||||
range: uint32
|
||||
required: false
|
||||
multivalued: false
|
||||
z:
|
||||
name: z
|
||||
description: Voxel z-coordinate.
|
||||
multivalued: false
|
||||
range: uint32
|
||||
required: false
|
||||
multivalued: false
|
||||
weight:
|
||||
name: weight
|
||||
description: Weight of the voxel.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
ImagingPlane:
|
||||
name: ImagingPlane
|
||||
description: An imaging plane and its metadata.
|
||||
|
|
@ -327,21 +297,20 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
name: description
|
||||
description: Description or other notes about the channel.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
emission_lambda:
|
||||
name: emission_lambda
|
||||
description: Emission wavelength for channel, in nm.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
MotionCorrection:
|
||||
name: MotionCorrection
|
||||
|
|
@ -365,20 +334,19 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
corrected:
|
||||
name: corrected
|
||||
description: Image stack with frames shifted to the common coordinates.
|
||||
multivalued: false
|
||||
range: ImageSeries
|
||||
required: true
|
||||
multivalued: false
|
||||
xy_translation:
|
||||
name: xy_translation
|
||||
description: Stores the x,y delta necessary to align each frame to the common
|
||||
coordinates, for example, to align each frame to a reference image.
|
||||
multivalued: false
|
||||
range: TimeSeries
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -29,68 +29,67 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(ImagingRetinotopy)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
axis_1_phase_map:
|
||||
name: axis_1_phase_map
|
||||
description: Phase response to stimulus on the first measured axis.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__axis_1_phase_map
|
||||
required: true
|
||||
multivalued: false
|
||||
axis_1_power_map:
|
||||
name: axis_1_power_map
|
||||
description: Power response on the first measured axis. Response is scaled
|
||||
so 0.0 is no power in the response and 1.0 is maximum relative power.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__axis_1_power_map
|
||||
required: false
|
||||
multivalued: false
|
||||
axis_2_phase_map:
|
||||
name: axis_2_phase_map
|
||||
description: Phase response to stimulus on the second measured axis.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__axis_2_phase_map
|
||||
required: true
|
||||
multivalued: false
|
||||
axis_2_power_map:
|
||||
name: axis_2_power_map
|
||||
description: Power response on the second measured axis. Response is scaled
|
||||
so 0.0 is no power in the response and 1.0 is maximum relative power.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__axis_2_power_map
|
||||
required: false
|
||||
multivalued: false
|
||||
axis_descriptions:
|
||||
name: axis_descriptions
|
||||
description: Two-element array describing the contents of the two response
|
||||
axis fields. Description should be something like ['altitude', 'azimuth']
|
||||
or '['radius', 'theta'].
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: axis_1_axis_2
|
||||
exact_cardinality: 2
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
focal_depth_image:
|
||||
name: focal_depth_image
|
||||
description: 'Gray-scale image taken with same settings/parameters (e.g.,
|
||||
focal depth, wavelength) as data collection. Array format: [rows][columns].'
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__focal_depth_image
|
||||
required: false
|
||||
multivalued: false
|
||||
sign_map:
|
||||
name: sign_map
|
||||
description: Sine of the angle between the direction of the gradient in axis_1
|
||||
and axis_2.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__sign_map
|
||||
required: false
|
||||
multivalued: false
|
||||
vasculature_image:
|
||||
name: vasculature_image
|
||||
description: 'Gray-scale anatomical image of cortical surface. Array structure:
|
||||
[rows][columns]'
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__vasculature_image
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ImagingRetinotopy__axis_1_phase_map:
|
||||
name: ImagingRetinotopy__axis_1_phase_map
|
||||
|
|
@ -99,7 +98,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(axis_1_phase_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: axis_1_phase_map
|
||||
|
|
@ -131,7 +129,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(axis_1_power_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: axis_1_power_map
|
||||
|
|
@ -162,7 +159,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(axis_2_phase_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: axis_2_phase_map
|
||||
|
|
@ -194,7 +190,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(axis_2_power_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: axis_2_power_map
|
||||
|
|
@ -226,7 +221,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(focal_depth_image)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: focal_depth_image
|
||||
|
|
@ -267,7 +261,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(sign_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: sign_map
|
||||
|
|
@ -295,7 +288,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(vasculature_image)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: vasculature_image
|
||||
|
|
|
|||
|
|
@ -21,7 +21,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -34,7 +33,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
resolution:
|
||||
|
|
@ -74,7 +72,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -86,7 +83,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -97,7 +93,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -116,49 +111,49 @@ classes:
|
|||
dimension should always represent time. This can also be used to store binary
|
||||
data (e.g., image frames). This can also be a link to data stored in an
|
||||
external file.
|
||||
multivalued: false
|
||||
range: TimeSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
starting_time:
|
||||
name: starting_time
|
||||
description: Timestamp of the first sample in seconds. When timestamps are
|
||||
uniformly spaced, the timestamp of the first sample can be specified and
|
||||
all subsequent ones calculated from the sampling rate attribute.
|
||||
multivalued: false
|
||||
range: TimeSeries__starting_time
|
||||
required: false
|
||||
multivalued: false
|
||||
timestamps:
|
||||
name: timestamps
|
||||
description: Timestamps for samples stored in data, in seconds, relative to
|
||||
the common experiment master-clock stored in NWBFile.timestamps_reference_time.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: float64
|
||||
required: false
|
||||
multivalued: false
|
||||
control:
|
||||
name: control
|
||||
description: Numerical labels that apply to each time point in data for the
|
||||
purpose of querying and slicing data by these values. If present, the length
|
||||
of this array should be the same size as the first dimension of data.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: uint8
|
||||
required: false
|
||||
multivalued: false
|
||||
control_description:
|
||||
name: control_description
|
||||
description: Description of each control value. Must be present if control
|
||||
is present. If present, control_description[0] should describe time points
|
||||
where control == 0.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_control_values
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
sync:
|
||||
name: sync
|
||||
description: Lab-specific time and sync information as provided directly from
|
||||
|
|
@ -167,9 +162,9 @@ classes:
|
|||
This group will usually only be populated in TimeSeries that are stored
|
||||
external to the NWB file, in files storing raw data. Once timestamp data
|
||||
is calculated, the contents of 'sync' are mostly for archival purposes.
|
||||
multivalued: false
|
||||
range: TimeSeries__sync
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
TimeSeries__data:
|
||||
name: TimeSeries__data
|
||||
|
|
@ -180,7 +175,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -252,7 +246,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(starting_time)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: starting_time
|
||||
|
|
@ -280,7 +273,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(sync)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: sync
|
||||
|
|
@ -306,7 +298,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(Images)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -316,7 +307,7 @@ classes:
|
|||
image:
|
||||
name: image
|
||||
description: Images stored in this collection.
|
||||
multivalued: true
|
||||
range: Image
|
||||
required: true
|
||||
multivalued: true
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -29,22 +29,21 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: 1-D or 2-D array storing position or direction relative to some
|
||||
reference frame.
|
||||
multivalued: false
|
||||
range: SpatialSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
reference_frame:
|
||||
name: reference_frame
|
||||
description: Description defining what exactly 'straight-ahead' means.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
SpatialSeries__data:
|
||||
name: SpatialSeries__data
|
||||
|
|
@ -54,7 +53,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
|
|||
|
|
@ -21,7 +21,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
|
|||
|
|
@ -25,7 +25,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
filtering:
|
||||
|
|
@ -41,9 +40,9 @@ classes:
|
|||
data:
|
||||
name: data
|
||||
description: Recorded voltage data.
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -59,11 +58,15 @@ classes:
|
|||
- alias: num_samples
|
||||
electrodes:
|
||||
name: electrodes
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: DynamicTableRegion pointer to the electrodes that this time series
|
||||
was generated from.
|
||||
multivalued: false
|
||||
range: ElectricalSeries__electrodes
|
||||
range: DynamicTableRegion
|
||||
required: true
|
||||
multivalued: false
|
||||
channel_conversion:
|
||||
name: channel_conversion
|
||||
description: Channel-specific conversion factor. Multiply the data in the
|
||||
|
|
@ -75,26 +78,13 @@ classes:
|
|||
as native values generated by data acquisition systems. If this dataset
|
||||
is not present, then there is no channel-specific conversion factor, i.e.
|
||||
it is 1 for all channels.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_channels
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ElectricalSeries__electrodes:
|
||||
name: ElectricalSeries__electrodes
|
||||
description: DynamicTableRegion pointer to the electrodes that this time series
|
||||
was generated from.
|
||||
is_a: DynamicTableRegion
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes
|
||||
SpikeEventSeries:
|
||||
name: SpikeEventSeries
|
||||
description: 'Stores snapshots/snippets of recorded spike events (i.e., threshold
|
||||
|
|
@ -109,15 +99,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Spike waveforms.
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -134,12 +123,12 @@ classes:
|
|||
the common experiment master-clock stored in NWBFile.timestamps_reference_time.
|
||||
Timestamps are required for the events. Unlike for TimeSeries, timestamps
|
||||
are required for SpikeEventSeries and are thus re-specified here.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: float64
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
FeatureExtraction:
|
||||
name: FeatureExtraction
|
||||
|
|
@ -150,23 +139,21 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(FeatureExtraction)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
name: description
|
||||
description: Description of features (eg, ''PC1'') for each of the extracted
|
||||
features.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_features
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
features:
|
||||
name: features
|
||||
description: Multi-dimensional array of features extracted from each event.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
|
|
@ -174,36 +161,28 @@ classes:
|
|||
- alias: num_features
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
times:
|
||||
name: times
|
||||
description: Times of events that features correspond to (can be a link).
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: float64
|
||||
required: true
|
||||
multivalued: false
|
||||
electrodes:
|
||||
name: electrodes
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: DynamicTableRegion pointer to the electrodes that this time series
|
||||
was generated from.
|
||||
range: DynamicTableRegion
|
||||
required: true
|
||||
multivalued: false
|
||||
range: FeatureExtraction__electrodes
|
||||
required: true
|
||||
tree_root: true
|
||||
FeatureExtraction__electrodes:
|
||||
name: FeatureExtraction__electrodes
|
||||
description: DynamicTableRegion pointer to the electrodes that this time series
|
||||
was generated from.
|
||||
is_a: DynamicTableRegion
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes
|
||||
EventDetection:
|
||||
name: EventDetection
|
||||
description: Detected spike events from voltage trace(s).
|
||||
|
|
@ -212,37 +191,36 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(EventDetection)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
detection_method:
|
||||
name: detection_method
|
||||
description: Description of how events were detected, such as voltage threshold,
|
||||
or dV/dT threshold, as well as relevant values.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
source_idx:
|
||||
name: source_idx
|
||||
description: Indices (zero-based) into source ElectricalSeries::data array
|
||||
corresponding to time of event. ''description'' should define what is meant
|
||||
by time of event (e.g., .25 ms before action potential peak, zero-crossing
|
||||
time, etc). The index points to each event from the raw data.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: int32
|
||||
required: true
|
||||
multivalued: false
|
||||
times:
|
||||
name: times
|
||||
description: Timestamps of events, in seconds.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: float64
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
EventWaveform:
|
||||
name: EventWaveform
|
||||
|
|
@ -304,7 +282,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -320,9 +297,9 @@ classes:
|
|||
position:
|
||||
name: position
|
||||
description: stereotaxic or common framework coordinates
|
||||
multivalued: false
|
||||
range: ElectrodeGroup__position
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ElectrodeGroup__position:
|
||||
name: ElectrodeGroup__position
|
||||
|
|
@ -331,28 +308,27 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(position)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: position
|
||||
x:
|
||||
name: x
|
||||
description: x coordinate
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
y:
|
||||
name: y
|
||||
description: y coordinate
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
z:
|
||||
name: z
|
||||
description: z coordinate
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
ClusterWaveforms:
|
||||
name: ClusterWaveforms
|
||||
description: DEPRECATED The mean waveform shape, including standard deviation,
|
||||
|
|
@ -366,39 +342,38 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(ClusterWaveforms)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
waveform_filtering:
|
||||
name: waveform_filtering
|
||||
description: Filtering applied to data before generating mean/sd
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
waveform_mean:
|
||||
name: waveform_mean
|
||||
description: The mean waveform for each cluster, using the same indices for
|
||||
each wave as cluster numbers in the associated Clustering module (i.e, cluster
|
||||
3 is in array slot [3]). Waveforms corresponding to gaps in cluster sequence
|
||||
should be empty (e.g., zero- filled)
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_clusters
|
||||
- alias: num_samples
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
waveform_sd:
|
||||
name: waveform_sd
|
||||
description: Stdev of waveforms for each cluster, using the same indices as
|
||||
in mean
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_clusters
|
||||
- alias: num_samples
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
Clustering:
|
||||
name: Clustering
|
||||
|
|
@ -409,43 +384,42 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(Clustering)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
name: description
|
||||
description: Description of clusters or clustering, (e.g. cluster 0 is noise,
|
||||
clusters curated using Klusters, etc)
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
num:
|
||||
name: num
|
||||
description: Cluster number of each event
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: int32
|
||||
required: true
|
||||
multivalued: false
|
||||
peak_over_rms:
|
||||
name: peak_over_rms
|
||||
description: Maximum ratio of waveform peak to RMS on any channel in the cluster
|
||||
(provides a basic clustering metric).
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_clusters
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
times:
|
||||
name: times
|
||||
description: Times of clustered events, in seconds. This may be a link to
|
||||
times field in associated FeatureExtraction module.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: float64
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -22,55 +22,62 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
start_time:
|
||||
name: start_time
|
||||
description: Start time of epoch, in seconds.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
stop_time:
|
||||
name: stop_time
|
||||
description: Stop time of epoch, in seconds.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
tags:
|
||||
name: tags
|
||||
description: User-defined tags that identify or categorize events.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tags_index:
|
||||
name: tags_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index for tags.
|
||||
multivalued: false
|
||||
range: TimeIntervals__tags_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
timeseries:
|
||||
name: timeseries
|
||||
description: An index into a TimeSeries object.
|
||||
multivalued: false
|
||||
range: TimeIntervals__timeseries
|
||||
required: false
|
||||
multivalued: false
|
||||
timeseries_index:
|
||||
name: timeseries_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index for timeseries.
|
||||
multivalued: false
|
||||
range: TimeIntervals__timeseries_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
TimeIntervals__tags_index:
|
||||
name: TimeIntervals__tags_index
|
||||
description: Index for tags.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(tags_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: tags_index
|
||||
TimeIntervals__timeseries:
|
||||
name: TimeIntervals__timeseries
|
||||
description: An index into a TimeSeries object.
|
||||
|
|
@ -79,7 +86,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(timeseries)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: timeseries
|
||||
|
|
@ -88,31 +94,19 @@ classes:
|
|||
description: Start index into the TimeSeries 'data' and 'timestamp' datasets
|
||||
of the referenced TimeSeries. The first dimension of those arrays is always
|
||||
time.
|
||||
multivalued: false
|
||||
range: int32
|
||||
required: false
|
||||
multivalued: false
|
||||
count:
|
||||
name: count
|
||||
description: Number of data samples available in this time series, during
|
||||
this epoch.
|
||||
multivalued: false
|
||||
range: int32
|
||||
required: false
|
||||
multivalued: false
|
||||
timeseries:
|
||||
name: timeseries
|
||||
description: the TimeSeries that this index applies to.
|
||||
multivalued: false
|
||||
range: TimeSeries
|
||||
required: false
|
||||
TimeIntervals__timeseries_index:
|
||||
name: TimeIntervals__timeseries_index
|
||||
description: Index for timeseries.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(timeseries_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: timeseries_index
|
||||
multivalued: false
|
||||
|
|
|
|||
|
|
@ -28,7 +28,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
notes:
|
||||
|
|
@ -45,7 +44,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(root)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: root
|
||||
|
|
@ -63,36 +61,36 @@ classes:
|
|||
The file can be created after the experiment was run, so this may differ
|
||||
from the experiment start time. Each modification to the nwb file adds a
|
||||
new entry to the array.'
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_modifications
|
||||
range: isodatetime
|
||||
required: true
|
||||
multivalued: false
|
||||
identifier:
|
||||
name: identifier
|
||||
description: A unique text identifier for the file. For example, concatenated
|
||||
lab name, file creation date/time and experimentalist, or a hash of these
|
||||
and/or other values. The goal is that the string should be unique to all
|
||||
other files.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
session_description:
|
||||
name: session_description
|
||||
description: A description of the experimental session and data in the file.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
session_start_time:
|
||||
name: session_start_time
|
||||
description: 'Date and time of the experiment/session start. The date is stored
|
||||
in UTC with local timezone offset as ISO 8601 extended formatted string:
|
||||
2018-09-28T14:43:54.123+02:00. Dates stored in UTC end in "Z" with no timezone
|
||||
offset. Date accuracy is up to milliseconds.'
|
||||
multivalued: false
|
||||
range: isodatetime
|
||||
required: true
|
||||
multivalued: false
|
||||
timestamps_reference_time:
|
||||
name: timestamps_reference_time
|
||||
description: 'Date and time corresponding to time zero of all timestamps.
|
||||
|
|
@ -100,9 +98,9 @@ classes:
|
|||
formatted string: 2018-09-28T14:43:54.123+02:00. Dates stored in UTC end
|
||||
in "Z" with no timezone offset. Date accuracy is up to milliseconds. All
|
||||
times stored in the file use this time as reference (i.e., time zero).'
|
||||
multivalued: false
|
||||
range: isodatetime
|
||||
required: true
|
||||
multivalued: false
|
||||
acquisition:
|
||||
name: acquisition
|
||||
description: Data streams recorded from the system, including ephys, ophys,
|
||||
|
|
@ -179,9 +177,9 @@ classes:
|
|||
an experiment. The stimulus group is organized so that one version of template
|
||||
stimuli can be stored and these be used multiple times. These templates
|
||||
can exist in the present file or can be linked to a remote library file.
|
||||
multivalued: false
|
||||
range: NWBFile__stimulus
|
||||
required: true
|
||||
multivalued: false
|
||||
general:
|
||||
name: general
|
||||
description: Experimental metadata, including protocol, notes and description
|
||||
|
|
@ -199,9 +197,9 @@ classes:
|
|||
datasets. All entries in the below table are to be included when data is
|
||||
present. Unused groups (e.g., intracellular_ephys in an optophysiology experiment)
|
||||
should not be created unless there is data to store within them.
|
||||
multivalued: false
|
||||
range: NWBFile__general
|
||||
required: true
|
||||
multivalued: false
|
||||
intervals:
|
||||
name: intervals
|
||||
description: Experimental intervals, whether that be logically distinct sub-experiments
|
||||
|
|
@ -219,9 +217,9 @@ classes:
|
|||
units:
|
||||
name: units
|
||||
description: Data about sorted spike units.
|
||||
multivalued: false
|
||||
range: Units
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
NWBFile__stimulus:
|
||||
name: NWBFile__stimulus
|
||||
|
|
@ -241,7 +239,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(stimulus)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: stimulus
|
||||
|
|
@ -284,129 +281,128 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(general)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: general
|
||||
data_collection:
|
||||
name: data_collection
|
||||
description: Notes about data collection and analysis.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
experiment_description:
|
||||
name: experiment_description
|
||||
description: General description of the experiment.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
experimenter:
|
||||
name: experimenter
|
||||
description: Name of person(s) who performed the experiment. Can also specify
|
||||
roles of different people involved.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_experimenters
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
institution:
|
||||
name: institution
|
||||
description: Institution(s) where experiment was performed.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
keywords:
|
||||
name: keywords
|
||||
description: Terms to search over.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_keywords
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
lab:
|
||||
name: lab
|
||||
description: Laboratory where experiment was performed.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
notes:
|
||||
name: notes
|
||||
description: Notes about the experiment.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
pharmacology:
|
||||
name: pharmacology
|
||||
description: Description of drugs used, including how and when they were administered.
|
||||
Anesthesia(s), painkiller(s), etc., plus dosage, concentration, etc.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
protocol:
|
||||
name: protocol
|
||||
description: Experimental protocol, if applicable. e.g., include IACUC protocol
|
||||
number.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
related_publications:
|
||||
name: related_publications
|
||||
description: Publication information. PMID, DOI, URL, etc.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_publications
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
session_id:
|
||||
name: session_id
|
||||
description: Lab-specific ID for the session.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
slices:
|
||||
name: slices
|
||||
description: Description of slices, including information about preparation
|
||||
thickness, orientation, temperature, and bath solution.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
source_script:
|
||||
name: source_script
|
||||
description: Script file or link to public source code used to create this
|
||||
NWB file.
|
||||
multivalued: false
|
||||
range: NWBFile__general__source_script
|
||||
required: false
|
||||
multivalued: false
|
||||
stimulus:
|
||||
name: stimulus
|
||||
description: Notes about stimuli, such as how and where they were presented.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
surgery:
|
||||
name: surgery
|
||||
description: Narrative description about surgery/surgeries, including date(s)
|
||||
and who performed surgery.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
virus:
|
||||
name: virus
|
||||
description: Information about virus(es) used in experiments, including virus
|
||||
ID, source, date made, injection location, volume, etc.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
lab_meta_data:
|
||||
name: lab_meta_data
|
||||
description: Place-holder than can be extended so that lab-specific meta-data
|
||||
can be placed in /general.
|
||||
multivalued: true
|
||||
range: LabMetaData
|
||||
required: false
|
||||
multivalued: true
|
||||
devices:
|
||||
name: devices
|
||||
description: Description of hardware devices used during experiment, e.g.,
|
||||
|
|
@ -420,21 +416,21 @@ classes:
|
|||
name: subject
|
||||
description: Information about the animal or person from which the data was
|
||||
measured.
|
||||
multivalued: false
|
||||
range: Subject
|
||||
required: false
|
||||
multivalued: false
|
||||
extracellular_ephys:
|
||||
name: extracellular_ephys
|
||||
description: Metadata related to extracellular electrophysiology.
|
||||
multivalued: false
|
||||
range: NWBFile__general__extracellular_ephys
|
||||
required: false
|
||||
multivalued: false
|
||||
intracellular_ephys:
|
||||
name: intracellular_ephys
|
||||
description: Metadata related to intracellular electrophysiology.
|
||||
multivalued: false
|
||||
range: NWBFile__general__intracellular_ephys
|
||||
required: false
|
||||
multivalued: false
|
||||
optogenetics:
|
||||
name: optogenetics
|
||||
description: Metadata describing optogenetic stimuluation.
|
||||
|
|
@ -459,7 +455,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(source_script)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: source_script
|
||||
|
|
@ -478,22 +473,21 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(extracellular_ephys)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: extracellular_ephys
|
||||
electrode_group:
|
||||
name: electrode_group
|
||||
description: Physical group of electrodes.
|
||||
multivalued: true
|
||||
range: ElectrodeGroup
|
||||
required: false
|
||||
multivalued: true
|
||||
electrodes:
|
||||
name: electrodes
|
||||
description: A table of all electrodes (i.e. channels) used for recording.
|
||||
multivalued: false
|
||||
range: NWBFile__general__extracellular_ephys__electrodes
|
||||
required: false
|
||||
multivalued: false
|
||||
NWBFile__general__extracellular_ephys__electrodes:
|
||||
name: NWBFile__general__extracellular_ephys__electrodes
|
||||
description: A table of all electrodes (i.e. channels) used for recording.
|
||||
|
|
@ -502,73 +496,117 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes
|
||||
x:
|
||||
name: x
|
||||
description: x coordinate of the channel location in the brain (+x is posterior).
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
y:
|
||||
name: y
|
||||
description: y coordinate of the channel location in the brain (+y is inferior).
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
z:
|
||||
name: z
|
||||
description: z coordinate of the channel location in the brain (+z is right).
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
imp:
|
||||
name: imp
|
||||
description: Impedance of the channel, in ohms.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
location:
|
||||
name: location
|
||||
description: Location of the electrode (channel). Specify the area, layer,
|
||||
comments on estimation of area/layer, stereotaxic coordinates if in vivo,
|
||||
etc. Use standard atlas names for anatomical regions when possible.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
filtering:
|
||||
name: filtering
|
||||
description: Description of hardware filtering, including the filter name
|
||||
and frequency cutoffs.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
group:
|
||||
name: group
|
||||
description: Reference to the ElectrodeGroup this electrode is a part of.
|
||||
multivalued: true
|
||||
range: ElectrodeGroup
|
||||
required: true
|
||||
multivalued: true
|
||||
group_name:
|
||||
name: group_name
|
||||
description: Name of the ElectrodeGroup this electrode is a part of.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
rel_x:
|
||||
name: rel_x
|
||||
description: x coordinate in electrode group
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
rel_y:
|
||||
name: rel_y
|
||||
description: y coordinate in electrode group
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
rel_z:
|
||||
name: rel_z
|
||||
description: z coordinate in electrode group
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
reference:
|
||||
name: reference
|
||||
description: Description of the reference used for this electrode.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
NWBFile__general__intracellular_ephys:
|
||||
name: NWBFile__general__intracellular_ephys
|
||||
description: Metadata related to intracellular electrophysiology.
|
||||
|
|
@ -576,7 +614,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(intracellular_ephys)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: intracellular_ephys
|
||||
|
|
@ -585,21 +622,21 @@ classes:
|
|||
description: Description of filtering used. Includes filtering type and parameters,
|
||||
frequency fall-off, etc. If this changes between TimeSeries, filter description
|
||||
should be stored as a text attribute for each TimeSeries.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
intracellular_electrode:
|
||||
name: intracellular_electrode
|
||||
description: An intracellular electrode.
|
||||
multivalued: true
|
||||
range: IntracellularElectrode
|
||||
required: false
|
||||
multivalued: true
|
||||
sweep_table:
|
||||
name: sweep_table
|
||||
description: The table which groups different PatchClampSeries together.
|
||||
multivalued: false
|
||||
range: SweepTable
|
||||
required: false
|
||||
multivalued: false
|
||||
LabMetaData:
|
||||
name: LabMetaData
|
||||
description: Lab-specific meta-data.
|
||||
|
|
@ -607,7 +644,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -618,63 +654,62 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
age:
|
||||
name: age
|
||||
description: Age of subject. Can be supplied instead of 'date_of_birth'.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
date_of_birth:
|
||||
name: date_of_birth
|
||||
description: Date of birth of subject. Can be supplied instead of 'age'.
|
||||
multivalued: false
|
||||
range: isodatetime
|
||||
required: false
|
||||
multivalued: false
|
||||
description:
|
||||
name: description
|
||||
description: Description of subject and where subject came from (e.g., breeder,
|
||||
if animal).
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
genotype:
|
||||
name: genotype
|
||||
description: Genetic strain. If absent, assume Wild Type (WT).
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
sex:
|
||||
name: sex
|
||||
description: Gender of subject.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
species:
|
||||
name: species
|
||||
description: Species of subject.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
strain:
|
||||
name: strain
|
||||
description: Strain of subject.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
subject_id:
|
||||
name: subject_id
|
||||
description: ID of animal/person used/participating in experiment (lab convention).
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
weight:
|
||||
name: weight
|
||||
description: Weight at time of experiment, at time of surgery and at other
|
||||
important times.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -23,7 +23,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
stimulus_description:
|
||||
|
|
@ -37,16 +36,16 @@ classes:
|
|||
data:
|
||||
name: data
|
||||
description: Recorded voltage or current.
|
||||
multivalued: false
|
||||
range: PatchClampSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
gain:
|
||||
name: gain
|
||||
description: Gain of the recording, in units Volt/Amp (v-clamp) or Volt/Volt
|
||||
(c-clamp).
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
PatchClampSeries__data:
|
||||
name: PatchClampSeries__data
|
||||
|
|
@ -55,7 +54,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -80,33 +78,32 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Recorded voltage.
|
||||
multivalued: false
|
||||
range: CurrentClampSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
bias_current:
|
||||
name: bias_current
|
||||
description: Bias current, in amps.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
bridge_balance:
|
||||
name: bridge_balance
|
||||
description: Bridge balance, in ohms.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
capacitance_compensation:
|
||||
name: capacitance_compensation
|
||||
description: Capacitance compensation, in farads.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
CurrentClampSeries__data:
|
||||
name: CurrentClampSeries__data
|
||||
|
|
@ -115,7 +112,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -139,7 +135,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
stimulus_description:
|
||||
|
|
@ -150,21 +145,21 @@ classes:
|
|||
bias_current:
|
||||
name: bias_current
|
||||
description: Bias current, in amps, fixed to 0.0.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
bridge_balance:
|
||||
name: bridge_balance
|
||||
description: Bridge balance, in ohms, fixed to 0.0.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
capacitance_compensation:
|
||||
name: capacitance_compensation
|
||||
description: Capacitance compensation, in farads, fixed to 0.0.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
CurrentClampStimulusSeries:
|
||||
name: CurrentClampStimulusSeries
|
||||
|
|
@ -173,15 +168,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Stimulus current applied.
|
||||
multivalued: false
|
||||
range: CurrentClampStimulusSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
CurrentClampStimulusSeries__data:
|
||||
name: CurrentClampStimulusSeries__data
|
||||
|
|
@ -190,7 +184,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -213,57 +206,56 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Recorded current.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
capacitance_fast:
|
||||
name: capacitance_fast
|
||||
description: Fast capacitance, in farads.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__capacitance_fast
|
||||
required: false
|
||||
multivalued: false
|
||||
capacitance_slow:
|
||||
name: capacitance_slow
|
||||
description: Slow capacitance, in farads.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__capacitance_slow
|
||||
required: false
|
||||
multivalued: false
|
||||
resistance_comp_bandwidth:
|
||||
name: resistance_comp_bandwidth
|
||||
description: Resistance compensation bandwidth, in hertz.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__resistance_comp_bandwidth
|
||||
required: false
|
||||
multivalued: false
|
||||
resistance_comp_correction:
|
||||
name: resistance_comp_correction
|
||||
description: Resistance compensation correction, in percent.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__resistance_comp_correction
|
||||
required: false
|
||||
multivalued: false
|
||||
resistance_comp_prediction:
|
||||
name: resistance_comp_prediction
|
||||
description: Resistance compensation prediction, in percent.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__resistance_comp_prediction
|
||||
required: false
|
||||
multivalued: false
|
||||
whole_cell_capacitance_comp:
|
||||
name: whole_cell_capacitance_comp
|
||||
description: Whole cell capacitance compensation, in farads.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__whole_cell_capacitance_comp
|
||||
required: false
|
||||
multivalued: false
|
||||
whole_cell_series_resistance_comp:
|
||||
name: whole_cell_series_resistance_comp
|
||||
description: Whole cell series resistance compensation, in ohms.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__whole_cell_series_resistance_comp
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
VoltageClampSeries__data:
|
||||
name: VoltageClampSeries__data
|
||||
|
|
@ -272,7 +264,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -293,7 +284,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(capacitance_fast)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: capacitance_fast
|
||||
|
|
@ -312,7 +302,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(capacitance_slow)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: capacitance_slow
|
||||
|
|
@ -331,7 +320,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(resistance_comp_bandwidth)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: resistance_comp_bandwidth
|
||||
|
|
@ -351,7 +339,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(resistance_comp_correction)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: resistance_comp_correction
|
||||
|
|
@ -371,7 +358,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(resistance_comp_prediction)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: resistance_comp_prediction
|
||||
|
|
@ -391,7 +377,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(whole_cell_capacitance_comp)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: whole_cell_capacitance_comp
|
||||
|
|
@ -411,7 +396,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(whole_cell_series_resistance_comp)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: whole_cell_series_resistance_comp
|
||||
|
|
@ -431,15 +415,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Stimulus voltage applied.
|
||||
multivalued: false
|
||||
range: VoltageClampStimulusSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
VoltageClampStimulusSeries__data:
|
||||
name: VoltageClampStimulusSeries__data
|
||||
|
|
@ -448,7 +431,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -469,53 +451,52 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
name: description
|
||||
description: Description of electrode (e.g., whole-cell, sharp, etc.).
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
filtering:
|
||||
name: filtering
|
||||
description: Electrode specific filtering.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
initial_access_resistance:
|
||||
name: initial_access_resistance
|
||||
description: Initial access resistance.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
location:
|
||||
name: location
|
||||
description: Location of the electrode. Specify the area, layer, comments
|
||||
on estimation of area/layer, stereotaxic coordinates if in vivo, etc. Use
|
||||
standard atlas names for anatomical regions when possible.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
resistance:
|
||||
name: resistance
|
||||
description: Electrode resistance, in ohms.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
seal:
|
||||
name: seal
|
||||
description: Information about seal used for recording.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
slice:
|
||||
name: slice
|
||||
description: Information about slice used for recording.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
SweepTable:
|
||||
name: SweepTable
|
||||
|
|
@ -524,35 +505,31 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
sweep_number:
|
||||
name: sweep_number
|
||||
description: Sweep number of the PatchClampSeries in that row.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: uint32
|
||||
required: true
|
||||
multivalued: false
|
||||
series:
|
||||
name: series
|
||||
description: The PatchClampSeries with the sweep number in that row.
|
||||
multivalued: true
|
||||
range: PatchClampSeries
|
||||
required: true
|
||||
multivalued: true
|
||||
series_index:
|
||||
name: series_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index for series.
|
||||
range: VectorIndex
|
||||
required: true
|
||||
multivalued: false
|
||||
range: SweepTable__series_index
|
||||
required: true
|
||||
tree_root: true
|
||||
SweepTable__series_index:
|
||||
name: SweepTable__series_index
|
||||
description: Index for series.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(series_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: series_index
|
||||
|
|
|
|||
|
|
@ -21,7 +21,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -32,7 +31,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -43,7 +41,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -59,15 +56,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Binary data representing images across frames.
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: false
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -83,12 +79,12 @@ classes:
|
|||
dimension:
|
||||
name: dimension
|
||||
description: Number of pixels on x, y, (and z) axes.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: rank
|
||||
range: int32
|
||||
required: false
|
||||
multivalued: false
|
||||
external_file:
|
||||
name: external_file
|
||||
description: Paths to one or more external file(s). The field is only present
|
||||
|
|
@ -96,18 +92,18 @@ classes:
|
|||
in the file system as one or more image file(s). This field should NOT be
|
||||
used if the image is stored in another NWB file and that file is linked
|
||||
to this file.
|
||||
multivalued: false
|
||||
range: ImageSeries__external_file
|
||||
required: false
|
||||
multivalued: false
|
||||
format:
|
||||
name: format
|
||||
description: Format of image. If this is 'external', then the attribute 'external_file'
|
||||
contains the path information to the image files. If this is 'raw', then
|
||||
the raw (single-channel) binary data is stored in the 'data' dataset. If
|
||||
this attribute is not present, then the default format='raw' case is assumed.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ImageSeries__external_file:
|
||||
name: ImageSeries__external_file
|
||||
|
|
@ -119,7 +115,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(external_file)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: external_file
|
||||
|
|
@ -155,7 +150,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -170,21 +164,20 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
distance:
|
||||
name: distance
|
||||
description: Distance from camera/monitor to target/eye.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
field_of_view:
|
||||
name: field_of_view
|
||||
description: Width, height and depth of image, or imaged area, in meters.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -197,9 +190,9 @@ classes:
|
|||
data:
|
||||
name: data
|
||||
description: Images presented to subject, either grayscale or RGB
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -217,9 +210,9 @@ classes:
|
|||
name: orientation
|
||||
description: Description of image relative to some reference frame (e.g.,
|
||||
which way is up). Must also specify frame of reference.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
IndexSeries:
|
||||
name: IndexSeries
|
||||
|
|
@ -233,16 +226,15 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Index of the frame in the referenced ImageSeries.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: int32
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -19,53 +19,67 @@ types:
|
|||
float32:
|
||||
name: float32
|
||||
typeof: float
|
||||
repr: np.float32
|
||||
float64:
|
||||
name: float64
|
||||
typeof: double
|
||||
repr: np.float64
|
||||
long:
|
||||
name: long
|
||||
typeof: integer
|
||||
repr: np.longlong
|
||||
int64:
|
||||
name: int64
|
||||
typeof: integer
|
||||
repr: np.int64
|
||||
int:
|
||||
name: int
|
||||
typeof: integer
|
||||
int32:
|
||||
name: int32
|
||||
typeof: integer
|
||||
repr: np.int32
|
||||
int16:
|
||||
name: int16
|
||||
typeof: integer
|
||||
repr: np.int16
|
||||
short:
|
||||
name: short
|
||||
typeof: integer
|
||||
repr: np.int16
|
||||
int8:
|
||||
name: int8
|
||||
typeof: integer
|
||||
repr: np.int8
|
||||
uint:
|
||||
name: uint
|
||||
typeof: integer
|
||||
repr: np.uint64
|
||||
minimum_value: 0
|
||||
uint32:
|
||||
name: uint32
|
||||
typeof: integer
|
||||
repr: np.uint32
|
||||
minimum_value: 0
|
||||
uint16:
|
||||
name: uint16
|
||||
typeof: integer
|
||||
repr: np.uint16
|
||||
minimum_value: 0
|
||||
uint8:
|
||||
name: uint8
|
||||
typeof: integer
|
||||
repr: np.uint8
|
||||
minimum_value: 0
|
||||
uint64:
|
||||
name: uint64
|
||||
typeof: integer
|
||||
repr: np.uint64
|
||||
minimum_value: 0
|
||||
numeric:
|
||||
name: numeric
|
||||
typeof: float
|
||||
repr: np.number
|
||||
text:
|
||||
name: text
|
||||
typeof: string
|
||||
|
|
@ -87,58 +101,7 @@ types:
|
|||
isodatetime:
|
||||
name: isodatetime
|
||||
typeof: datetime
|
||||
enums:
|
||||
FlatDType:
|
||||
name: FlatDType
|
||||
permissible_values:
|
||||
float:
|
||||
text: float
|
||||
float32:
|
||||
text: float32
|
||||
double:
|
||||
text: double
|
||||
float64:
|
||||
text: float64
|
||||
long:
|
||||
text: long
|
||||
int64:
|
||||
text: int64
|
||||
int:
|
||||
text: int
|
||||
int32:
|
||||
text: int32
|
||||
int16:
|
||||
text: int16
|
||||
short:
|
||||
text: short
|
||||
int8:
|
||||
text: int8
|
||||
uint:
|
||||
text: uint
|
||||
uint32:
|
||||
text: uint32
|
||||
uint16:
|
||||
text: uint16
|
||||
uint8:
|
||||
text: uint8
|
||||
uint64:
|
||||
text: uint64
|
||||
numeric:
|
||||
text: numeric
|
||||
text:
|
||||
text: text
|
||||
utf:
|
||||
text: utf
|
||||
utf8:
|
||||
text: utf8
|
||||
utf_8:
|
||||
text: utf_8
|
||||
ascii:
|
||||
text: ascii
|
||||
bool:
|
||||
text: bool
|
||||
isodatetime:
|
||||
text: isodatetime
|
||||
repr: np.datetime64
|
||||
classes:
|
||||
AnyType:
|
||||
name: AnyType
|
||||
|
|
|
|||
|
|
@ -30,33 +30,32 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Values of each feature at each time.
|
||||
multivalued: false
|
||||
range: AbstractFeatureSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
feature_units:
|
||||
name: feature_units
|
||||
description: Units of each feature.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_features
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
features:
|
||||
name: features
|
||||
description: Description of the features represented in TimeSeries::data.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_features
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
AbstractFeatureSeries__data:
|
||||
name: AbstractFeatureSeries__data
|
||||
|
|
@ -65,7 +64,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -96,18 +94,17 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Annotations made during an experiment.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
IntervalSeries:
|
||||
name: IntervalSeries
|
||||
|
|
@ -122,18 +119,17 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Use values >0 if interval started, <0 if interval ended.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: int8
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
DecompositionSeries:
|
||||
name: DecompositionSeries
|
||||
|
|
@ -142,35 +138,38 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Data decomposed into frequency bands.
|
||||
multivalued: false
|
||||
range: DecompositionSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
metric:
|
||||
name: metric
|
||||
description: The metric used, e.g. phase, amplitude, power.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
source_channels:
|
||||
name: source_channels
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: DynamicTableRegion pointer to the channels that this decomposition
|
||||
series was generated from.
|
||||
multivalued: false
|
||||
range: DecompositionSeries__source_channels
|
||||
range: DynamicTableRegion
|
||||
required: false
|
||||
multivalued: false
|
||||
bands:
|
||||
name: bands
|
||||
description: Table for describing the bands that this series was generated
|
||||
from. There should be one row in this table for each band.
|
||||
multivalued: false
|
||||
range: DecompositionSeries__bands
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
DecompositionSeries__data:
|
||||
name: DecompositionSeries__data
|
||||
|
|
@ -179,7 +178,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -197,19 +195,6 @@ classes:
|
|||
- alias: num_channels
|
||||
- alias: num_bands
|
||||
range: numeric
|
||||
DecompositionSeries__source_channels:
|
||||
name: DecompositionSeries__source_channels
|
||||
description: DynamicTableRegion pointer to the channels that this decomposition
|
||||
series was generated from.
|
||||
is_a: DynamicTableRegion
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(source_channels)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: source_channels
|
||||
DecompositionSeries__bands:
|
||||
name: DecompositionSeries__bands
|
||||
description: Table for describing the bands that this series was generated from.
|
||||
|
|
@ -219,20 +204,22 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(bands)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: bands
|
||||
band_name:
|
||||
name: band_name
|
||||
description: Name of the band, e.g. theta.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
band_limits:
|
||||
name: band_limits
|
||||
description: Low and high limit of each band in Hz. If it is a Gaussian filter,
|
||||
use 2 SD on either side of the center.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_bands
|
||||
|
|
@ -240,24 +227,25 @@ classes:
|
|||
exact_cardinality: 2
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
band_mean:
|
||||
name: band_mean
|
||||
description: The mean Gaussian filters, in Hz.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_bands
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
band_stdev:
|
||||
name: band_stdev
|
||||
description: The standard deviation of Gaussian filters, in Hz.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_bands
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
Units:
|
||||
name: Units
|
||||
description: Data about spiking units. Event times of observed units (e.g. cell,
|
||||
|
|
@ -267,31 +255,37 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(Units)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
spike_times_index:
|
||||
name: spike_times_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into the spike_times dataset.
|
||||
multivalued: false
|
||||
range: Units__spike_times_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
spike_times:
|
||||
name: spike_times
|
||||
description: Spike times for each unit.
|
||||
multivalued: false
|
||||
range: Units__spike_times
|
||||
required: false
|
||||
multivalued: false
|
||||
obs_intervals_index:
|
||||
name: obs_intervals_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into the obs_intervals dataset.
|
||||
multivalued: false
|
||||
range: Units__obs_intervals_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
obs_intervals:
|
||||
name: obs_intervals
|
||||
description: Observation intervals for each unit.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_intervals
|
||||
|
|
@ -299,29 +293,39 @@ classes:
|
|||
exact_cardinality: 2
|
||||
range: float64
|
||||
required: false
|
||||
multivalued: false
|
||||
electrodes_index:
|
||||
name: electrodes_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into electrodes.
|
||||
multivalued: false
|
||||
range: Units__electrodes_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
electrodes:
|
||||
name: electrodes
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Electrode that each spike unit came from, specified using a DynamicTableRegion.
|
||||
multivalued: false
|
||||
range: Units__electrodes
|
||||
range: DynamicTableRegion
|
||||
required: false
|
||||
multivalued: false
|
||||
electrode_group:
|
||||
name: electrode_group
|
||||
description: Electrode group that each spike unit came from.
|
||||
multivalued: true
|
||||
range: ElectrodeGroup
|
||||
required: false
|
||||
multivalued: true
|
||||
waveform_mean:
|
||||
name: waveform_mean
|
||||
description: Spike waveform mean for each spike unit.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -335,9 +339,9 @@ classes:
|
|||
waveform_sd:
|
||||
name: waveform_sd
|
||||
description: Spike waveform standard deviation for each spike unit.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -373,40 +377,36 @@ classes:
|
|||
order of the waveforms within a given unit x spike event should be in the
|
||||
same order as the electrodes referenced in the 'electrodes' column of this
|
||||
table. The number of samples for each waveform must be the same.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_waveforms
|
||||
- alias: num_samples
|
||||
range: numeric
|
||||
required: false
|
||||
multivalued: false
|
||||
waveforms_index:
|
||||
name: waveforms_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into the waveforms dataset. One value for every spike event.
|
||||
See 'waveforms' for more detail.
|
||||
multivalued: false
|
||||
range: Units__waveforms_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
waveforms_index_index:
|
||||
name: waveforms_index_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into the waveforms_index dataset. One value for every unit
|
||||
(row in the table). See 'waveforms' for more detail.
|
||||
multivalued: false
|
||||
range: Units__waveforms_index_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
Units__spike_times_index:
|
||||
name: Units__spike_times_index
|
||||
description: Index into the spike_times dataset.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(spike_times_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: spike_times_index
|
||||
Units__spike_times:
|
||||
name: Units__spike_times
|
||||
description: Spike times for each unit.
|
||||
|
|
@ -415,7 +415,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(spike_times)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: spike_times
|
||||
|
|
@ -427,65 +426,3 @@ classes:
|
|||
if the acquisition time series was smoothed/interpolated and it is possible
|
||||
for the spike time to be between samples.
|
||||
range: float64
|
||||
Units__obs_intervals_index:
|
||||
name: Units__obs_intervals_index
|
||||
description: Index into the obs_intervals dataset.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(obs_intervals_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: obs_intervals_index
|
||||
Units__electrodes_index:
|
||||
name: Units__electrodes_index
|
||||
description: Index into electrodes.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes_index
|
||||
Units__electrodes:
|
||||
name: Units__electrodes
|
||||
description: Electrode that each spike unit came from, specified using a DynamicTableRegion.
|
||||
is_a: DynamicTableRegion
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes
|
||||
Units__waveforms_index:
|
||||
name: Units__waveforms_index
|
||||
description: Index into the waveforms dataset. One value for every spike event.
|
||||
See 'waveforms' for more detail.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(waveforms_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: waveforms_index
|
||||
Units__waveforms_index_index:
|
||||
name: Units__waveforms_index_index
|
||||
description: Index into the waveforms_index dataset. One value for every unit
|
||||
(row in the table). See 'waveforms' for more detail.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(waveforms_index_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: waveforms_index_index
|
||||
|
|
|
|||
|
|
@ -21,18 +21,17 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Applied power for optogenetic stimulus, in watts.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
OptogeneticStimulusSite:
|
||||
name: OptogeneticStimulusSite
|
||||
|
|
@ -41,27 +40,26 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
name: description
|
||||
description: Description of stimulation site.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
excitation_lambda:
|
||||
name: excitation_lambda
|
||||
description: Excitation wavelength, in nm.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
location:
|
||||
name: location
|
||||
description: Location of the stimulation site. Specify the area, layer, comments
|
||||
on estimation of area/layer, stereotaxic coordinates if in vivo, etc. Use
|
||||
standard atlas names for anatomical regions when possible.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -23,7 +23,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
pmt_gain:
|
||||
|
|
@ -39,9 +38,9 @@ classes:
|
|||
field_of_view:
|
||||
name: field_of_view
|
||||
description: Width, height and depth of image, or imaged area, in meters.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -60,15 +59,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Signals from ROIs.
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -79,25 +77,16 @@ classes:
|
|||
- alias: num_rois
|
||||
rois:
|
||||
name: rois
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: DynamicTableRegion referencing into an ROITable containing information
|
||||
on the ROIs stored in this timeseries.
|
||||
range: DynamicTableRegion
|
||||
required: true
|
||||
multivalued: false
|
||||
range: RoiResponseSeries__rois
|
||||
required: true
|
||||
tree_root: true
|
||||
RoiResponseSeries__rois:
|
||||
name: RoiResponseSeries__rois
|
||||
description: DynamicTableRegion referencing into an ROITable containing information
|
||||
on the ROIs stored in this timeseries.
|
||||
is_a: DynamicTableRegion
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(rois)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: rois
|
||||
DfOverF:
|
||||
name: DfOverF
|
||||
description: dF/F information about a region of interest (ROI). Storage hierarchy
|
||||
|
|
@ -154,56 +143,51 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
image_mask:
|
||||
name: image_mask
|
||||
description: ROI masks for each ROI. Each image mask is the size of the original
|
||||
imaging plane (or volume) and members of the ROI are finite non-zero.
|
||||
multivalued: false
|
||||
range: AnyType
|
||||
range: PlaneSegmentation__image_mask
|
||||
required: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
- alias: num_roi
|
||||
- alias: num_x
|
||||
- alias: num_y
|
||||
- array:
|
||||
dimensions:
|
||||
- alias: num_roi
|
||||
- alias: num_x
|
||||
- alias: num_y
|
||||
- alias: num_z
|
||||
multivalued: false
|
||||
pixel_mask_index:
|
||||
name: pixel_mask_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into pixel_mask.
|
||||
multivalued: false
|
||||
range: PlaneSegmentation__pixel_mask_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
pixel_mask:
|
||||
name: pixel_mask
|
||||
description: 'Pixel masks for each ROI: a list of indices and weights for
|
||||
the ROI. Pixel masks are concatenated and parsing of this dataset is maintained
|
||||
by the PlaneSegmentation'
|
||||
multivalued: false
|
||||
range: PlaneSegmentation__pixel_mask
|
||||
required: false
|
||||
multivalued: false
|
||||
voxel_mask_index:
|
||||
name: voxel_mask_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into voxel_mask.
|
||||
multivalued: false
|
||||
range: PlaneSegmentation__voxel_mask_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
voxel_mask:
|
||||
name: voxel_mask
|
||||
description: 'Voxel masks for each ROI: a list of indices and weights for
|
||||
the ROI. Voxel masks are concatenated and parsing of this dataset is maintained
|
||||
by the PlaneSegmentation'
|
||||
multivalued: false
|
||||
range: PlaneSegmentation__voxel_mask
|
||||
required: false
|
||||
multivalued: false
|
||||
reference_images:
|
||||
name: reference_images
|
||||
description: Image stacks that the segmentation masks apply to.
|
||||
|
|
@ -213,18 +197,18 @@ classes:
|
|||
any_of:
|
||||
- range: ImageSeries
|
||||
tree_root: true
|
||||
PlaneSegmentation__pixel_mask_index:
|
||||
name: PlaneSegmentation__pixel_mask_index
|
||||
description: Index into pixel_mask.
|
||||
is_a: VectorIndex
|
||||
PlaneSegmentation__image_mask:
|
||||
name: PlaneSegmentation__image_mask
|
||||
description: ROI masks for each ROI. Each image mask is the size of the original
|
||||
imaging plane (or volume) and members of the ROI are finite non-zero.
|
||||
is_a: VectorData
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(pixel_mask_index)
|
||||
identifier: true
|
||||
ifabsent: string(image_mask)
|
||||
range: string
|
||||
required: true
|
||||
equals_string: pixel_mask_index
|
||||
equals_string: image_mask
|
||||
PlaneSegmentation__pixel_mask:
|
||||
name: PlaneSegmentation__pixel_mask
|
||||
description: 'Pixel masks for each ROI: a list of indices and weights for the
|
||||
|
|
@ -235,40 +219,27 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(pixel_mask)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: pixel_mask
|
||||
x:
|
||||
name: x
|
||||
description: Pixel x-coordinate.
|
||||
multivalued: false
|
||||
range: uint32
|
||||
required: false
|
||||
multivalued: false
|
||||
y:
|
||||
name: y
|
||||
description: Pixel y-coordinate.
|
||||
multivalued: false
|
||||
range: uint32
|
||||
required: false
|
||||
multivalued: false
|
||||
weight:
|
||||
name: weight
|
||||
description: Weight of the pixel.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
PlaneSegmentation__voxel_mask_index:
|
||||
name: PlaneSegmentation__voxel_mask_index
|
||||
description: Index into voxel_mask.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(voxel_mask_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: voxel_mask_index
|
||||
multivalued: false
|
||||
PlaneSegmentation__voxel_mask:
|
||||
name: PlaneSegmentation__voxel_mask
|
||||
description: 'Voxel masks for each ROI: a list of indices and weights for the
|
||||
|
|
@ -279,34 +250,33 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(voxel_mask)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: voxel_mask
|
||||
x:
|
||||
name: x
|
||||
description: Voxel x-coordinate.
|
||||
multivalued: false
|
||||
range: uint32
|
||||
required: false
|
||||
multivalued: false
|
||||
y:
|
||||
name: y
|
||||
description: Voxel y-coordinate.
|
||||
multivalued: false
|
||||
range: uint32
|
||||
required: false
|
||||
multivalued: false
|
||||
z:
|
||||
name: z
|
||||
description: Voxel z-coordinate.
|
||||
multivalued: false
|
||||
range: uint32
|
||||
required: false
|
||||
multivalued: false
|
||||
weight:
|
||||
name: weight
|
||||
description: Weight of the voxel.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
ImagingPlane:
|
||||
name: ImagingPlane
|
||||
description: An imaging plane and its metadata.
|
||||
|
|
@ -327,21 +297,20 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
name: description
|
||||
description: Description or other notes about the channel.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
emission_lambda:
|
||||
name: emission_lambda
|
||||
description: Emission wavelength for channel, in nm.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
MotionCorrection:
|
||||
name: MotionCorrection
|
||||
|
|
@ -365,20 +334,19 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
corrected:
|
||||
name: corrected
|
||||
description: Image stack with frames shifted to the common coordinates.
|
||||
multivalued: false
|
||||
range: ImageSeries
|
||||
required: true
|
||||
multivalued: false
|
||||
xy_translation:
|
||||
name: xy_translation
|
||||
description: Stores the x,y delta necessary to align each frame to the common
|
||||
coordinates, for example, to align each frame to a reference image.
|
||||
multivalued: false
|
||||
range: TimeSeries
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -29,68 +29,67 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(ImagingRetinotopy)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
axis_1_phase_map:
|
||||
name: axis_1_phase_map
|
||||
description: Phase response to stimulus on the first measured axis.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__axis_1_phase_map
|
||||
required: true
|
||||
multivalued: false
|
||||
axis_1_power_map:
|
||||
name: axis_1_power_map
|
||||
description: Power response on the first measured axis. Response is scaled
|
||||
so 0.0 is no power in the response and 1.0 is maximum relative power.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__axis_1_power_map
|
||||
required: false
|
||||
multivalued: false
|
||||
axis_2_phase_map:
|
||||
name: axis_2_phase_map
|
||||
description: Phase response to stimulus on the second measured axis.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__axis_2_phase_map
|
||||
required: true
|
||||
multivalued: false
|
||||
axis_2_power_map:
|
||||
name: axis_2_power_map
|
||||
description: Power response on the second measured axis. Response is scaled
|
||||
so 0.0 is no power in the response and 1.0 is maximum relative power.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__axis_2_power_map
|
||||
required: false
|
||||
multivalued: false
|
||||
axis_descriptions:
|
||||
name: axis_descriptions
|
||||
description: Two-element array describing the contents of the two response
|
||||
axis fields. Description should be something like ['altitude', 'azimuth']
|
||||
or '['radius', 'theta'].
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: axis_1_axis_2
|
||||
exact_cardinality: 2
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
focal_depth_image:
|
||||
name: focal_depth_image
|
||||
description: 'Gray-scale image taken with same settings/parameters (e.g.,
|
||||
focal depth, wavelength) as data collection. Array format: [rows][columns].'
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__focal_depth_image
|
||||
required: false
|
||||
multivalued: false
|
||||
sign_map:
|
||||
name: sign_map
|
||||
description: Sine of the angle between the direction of the gradient in axis_1
|
||||
and axis_2.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__sign_map
|
||||
required: false
|
||||
multivalued: false
|
||||
vasculature_image:
|
||||
name: vasculature_image
|
||||
description: 'Gray-scale anatomical image of cortical surface. Array structure:
|
||||
[rows][columns]'
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__vasculature_image
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ImagingRetinotopy__axis_1_phase_map:
|
||||
name: ImagingRetinotopy__axis_1_phase_map
|
||||
|
|
@ -99,7 +98,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(axis_1_phase_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: axis_1_phase_map
|
||||
|
|
@ -131,7 +129,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(axis_1_power_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: axis_1_power_map
|
||||
|
|
@ -162,7 +159,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(axis_2_phase_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: axis_2_phase_map
|
||||
|
|
@ -194,7 +190,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(axis_2_power_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: axis_2_power_map
|
||||
|
|
@ -226,7 +221,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(focal_depth_image)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: focal_depth_image
|
||||
|
|
@ -267,7 +261,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(sign_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: sign_map
|
||||
|
|
@ -295,7 +288,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(vasculature_image)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: vasculature_image
|
||||
|
|
|
|||
|
|
@ -21,7 +21,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -35,7 +34,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(timeseries)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
idx_start:
|
||||
|
|
@ -43,22 +41,22 @@ classes:
|
|||
description: Start index into the TimeSeries 'data' and 'timestamp' datasets
|
||||
of the referenced TimeSeries. The first dimension of those arrays is always
|
||||
time.
|
||||
multivalued: false
|
||||
range: int32
|
||||
required: true
|
||||
multivalued: false
|
||||
count:
|
||||
name: count
|
||||
description: Number of data samples available in this time series, during
|
||||
this epoch
|
||||
multivalued: false
|
||||
range: int32
|
||||
required: true
|
||||
multivalued: false
|
||||
timeseries:
|
||||
name: timeseries
|
||||
description: The TimeSeries that this index applies to
|
||||
multivalued: false
|
||||
range: TimeSeries
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
Image:
|
||||
name: Image
|
||||
|
|
@ -69,7 +67,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
resolution:
|
||||
|
|
@ -109,7 +106,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -121,7 +117,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -132,7 +127,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -151,49 +145,49 @@ classes:
|
|||
dimension should always represent time. This can also be used to store binary
|
||||
data (e.g., image frames). This can also be a link to data stored in an
|
||||
external file.
|
||||
multivalued: false
|
||||
range: TimeSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
starting_time:
|
||||
name: starting_time
|
||||
description: Timestamp of the first sample in seconds. When timestamps are
|
||||
uniformly spaced, the timestamp of the first sample can be specified and
|
||||
all subsequent ones calculated from the sampling rate attribute.
|
||||
multivalued: false
|
||||
range: TimeSeries__starting_time
|
||||
required: false
|
||||
multivalued: false
|
||||
timestamps:
|
||||
name: timestamps
|
||||
description: Timestamps for samples stored in data, in seconds, relative to
|
||||
the common experiment master-clock stored in NWBFile.timestamps_reference_time.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: float64
|
||||
required: false
|
||||
multivalued: false
|
||||
control:
|
||||
name: control
|
||||
description: Numerical labels that apply to each time point in data for the
|
||||
purpose of querying and slicing data by these values. If present, the length
|
||||
of this array should be the same size as the first dimension of data.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: uint8
|
||||
required: false
|
||||
multivalued: false
|
||||
control_description:
|
||||
name: control_description
|
||||
description: Description of each control value. Must be present if control
|
||||
is present. If present, control_description[0] should describe time points
|
||||
where control == 0.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_control_values
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
sync:
|
||||
name: sync
|
||||
description: Lab-specific time and sync information as provided directly from
|
||||
|
|
@ -202,9 +196,9 @@ classes:
|
|||
This group will usually only be populated in TimeSeries that are stored
|
||||
external to the NWB file, in files storing raw data. Once timestamp data
|
||||
is calculated, the contents of 'sync' are mostly for archival purposes.
|
||||
multivalued: false
|
||||
range: TimeSeries__sync
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
TimeSeries__data:
|
||||
name: TimeSeries__data
|
||||
|
|
@ -215,7 +209,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -287,7 +280,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(starting_time)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: starting_time
|
||||
|
|
@ -315,7 +307,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(sync)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: sync
|
||||
|
|
@ -341,7 +332,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(Images)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -351,7 +341,7 @@ classes:
|
|||
image:
|
||||
name: image
|
||||
description: Images stored in this collection.
|
||||
multivalued: true
|
||||
range: Image
|
||||
required: true
|
||||
multivalued: true
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -29,22 +29,21 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: 1-D or 2-D array storing position or direction relative to some
|
||||
reference frame.
|
||||
multivalued: false
|
||||
range: SpatialSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
reference_frame:
|
||||
name: reference_frame
|
||||
description: Description defining what exactly 'straight-ahead' means.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
SpatialSeries__data:
|
||||
name: SpatialSeries__data
|
||||
|
|
@ -54,7 +53,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
|
|||
|
|
@ -21,7 +21,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
|
|||
|
|
@ -25,7 +25,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
filtering:
|
||||
|
|
@ -41,9 +40,9 @@ classes:
|
|||
data:
|
||||
name: data
|
||||
description: Recorded voltage data.
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -59,11 +58,15 @@ classes:
|
|||
- alias: num_samples
|
||||
electrodes:
|
||||
name: electrodes
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: DynamicTableRegion pointer to the electrodes that this time series
|
||||
was generated from.
|
||||
multivalued: false
|
||||
range: ElectricalSeries__electrodes
|
||||
range: DynamicTableRegion
|
||||
required: true
|
||||
multivalued: false
|
||||
channel_conversion:
|
||||
name: channel_conversion
|
||||
description: Channel-specific conversion factor. Multiply the data in the
|
||||
|
|
@ -75,26 +78,13 @@ classes:
|
|||
as native values generated by data acquisition systems. If this dataset
|
||||
is not present, then there is no channel-specific conversion factor, i.e.
|
||||
it is 1 for all channels.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_channels
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ElectricalSeries__electrodes:
|
||||
name: ElectricalSeries__electrodes
|
||||
description: DynamicTableRegion pointer to the electrodes that this time series
|
||||
was generated from.
|
||||
is_a: DynamicTableRegion
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes
|
||||
SpikeEventSeries:
|
||||
name: SpikeEventSeries
|
||||
description: 'Stores snapshots/snippets of recorded spike events (i.e., threshold
|
||||
|
|
@ -109,15 +99,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Spike waveforms.
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -134,12 +123,12 @@ classes:
|
|||
the common experiment master-clock stored in NWBFile.timestamps_reference_time.
|
||||
Timestamps are required for the events. Unlike for TimeSeries, timestamps
|
||||
are required for SpikeEventSeries and are thus re-specified here.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: float64
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
FeatureExtraction:
|
||||
name: FeatureExtraction
|
||||
|
|
@ -150,23 +139,21 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(FeatureExtraction)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
name: description
|
||||
description: Description of features (eg, ''PC1'') for each of the extracted
|
||||
features.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_features
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
features:
|
||||
name: features
|
||||
description: Multi-dimensional array of features extracted from each event.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
|
|
@ -174,36 +161,28 @@ classes:
|
|||
- alias: num_features
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
times:
|
||||
name: times
|
||||
description: Times of events that features correspond to (can be a link).
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: float64
|
||||
required: true
|
||||
multivalued: false
|
||||
electrodes:
|
||||
name: electrodes
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: DynamicTableRegion pointer to the electrodes that this time series
|
||||
was generated from.
|
||||
range: DynamicTableRegion
|
||||
required: true
|
||||
multivalued: false
|
||||
range: FeatureExtraction__electrodes
|
||||
required: true
|
||||
tree_root: true
|
||||
FeatureExtraction__electrodes:
|
||||
name: FeatureExtraction__electrodes
|
||||
description: DynamicTableRegion pointer to the electrodes that this time series
|
||||
was generated from.
|
||||
is_a: DynamicTableRegion
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes
|
||||
EventDetection:
|
||||
name: EventDetection
|
||||
description: Detected spike events from voltage trace(s).
|
||||
|
|
@ -212,37 +191,36 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(EventDetection)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
detection_method:
|
||||
name: detection_method
|
||||
description: Description of how events were detected, such as voltage threshold,
|
||||
or dV/dT threshold, as well as relevant values.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
source_idx:
|
||||
name: source_idx
|
||||
description: Indices (zero-based) into source ElectricalSeries::data array
|
||||
corresponding to time of event. ''description'' should define what is meant
|
||||
by time of event (e.g., .25 ms before action potential peak, zero-crossing
|
||||
time, etc). The index points to each event from the raw data.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: int32
|
||||
required: true
|
||||
multivalued: false
|
||||
times:
|
||||
name: times
|
||||
description: Timestamps of events, in seconds.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: float64
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
EventWaveform:
|
||||
name: EventWaveform
|
||||
|
|
@ -304,7 +282,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -320,9 +297,9 @@ classes:
|
|||
position:
|
||||
name: position
|
||||
description: stereotaxic or common framework coordinates
|
||||
multivalued: false
|
||||
range: ElectrodeGroup__position
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ElectrodeGroup__position:
|
||||
name: ElectrodeGroup__position
|
||||
|
|
@ -331,28 +308,27 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(position)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: position
|
||||
x:
|
||||
name: x
|
||||
description: x coordinate
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
y:
|
||||
name: y
|
||||
description: y coordinate
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
z:
|
||||
name: z
|
||||
description: z coordinate
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
ClusterWaveforms:
|
||||
name: ClusterWaveforms
|
||||
description: DEPRECATED The mean waveform shape, including standard deviation,
|
||||
|
|
@ -366,39 +342,38 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(ClusterWaveforms)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
waveform_filtering:
|
||||
name: waveform_filtering
|
||||
description: Filtering applied to data before generating mean/sd
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
waveform_mean:
|
||||
name: waveform_mean
|
||||
description: The mean waveform for each cluster, using the same indices for
|
||||
each wave as cluster numbers in the associated Clustering module (i.e, cluster
|
||||
3 is in array slot [3]). Waveforms corresponding to gaps in cluster sequence
|
||||
should be empty (e.g., zero- filled)
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_clusters
|
||||
- alias: num_samples
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
waveform_sd:
|
||||
name: waveform_sd
|
||||
description: Stdev of waveforms for each cluster, using the same indices as
|
||||
in mean
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_clusters
|
||||
- alias: num_samples
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
Clustering:
|
||||
name: Clustering
|
||||
|
|
@ -409,43 +384,42 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(Clustering)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
name: description
|
||||
description: Description of clusters or clustering, (e.g. cluster 0 is noise,
|
||||
clusters curated using Klusters, etc)
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
num:
|
||||
name: num
|
||||
description: Cluster number of each event
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: int32
|
||||
required: true
|
||||
multivalued: false
|
||||
peak_over_rms:
|
||||
name: peak_over_rms
|
||||
description: Maximum ratio of waveform peak to RMS on any channel in the cluster
|
||||
(provides a basic clustering metric).
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_clusters
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
times:
|
||||
name: times
|
||||
description: Times of clustered events, in seconds. This may be a link to
|
||||
times field in associated FeatureExtraction module.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: float64
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -22,55 +22,62 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
start_time:
|
||||
name: start_time
|
||||
description: Start time of epoch, in seconds.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
stop_time:
|
||||
name: stop_time
|
||||
description: Stop time of epoch, in seconds.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
tags:
|
||||
name: tags
|
||||
description: User-defined tags that identify or categorize events.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tags_index:
|
||||
name: tags_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index for tags.
|
||||
multivalued: false
|
||||
range: TimeIntervals__tags_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
timeseries:
|
||||
name: timeseries
|
||||
description: An index into a TimeSeries object.
|
||||
multivalued: false
|
||||
range: TimeIntervals__timeseries
|
||||
required: false
|
||||
multivalued: false
|
||||
timeseries_index:
|
||||
name: timeseries_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index for timeseries.
|
||||
multivalued: false
|
||||
range: TimeIntervals__timeseries_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
TimeIntervals__tags_index:
|
||||
name: TimeIntervals__tags_index
|
||||
description: Index for tags.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(tags_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: tags_index
|
||||
TimeIntervals__timeseries:
|
||||
name: TimeIntervals__timeseries
|
||||
description: An index into a TimeSeries object.
|
||||
|
|
@ -79,7 +86,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(timeseries)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: timeseries
|
||||
|
|
@ -88,31 +94,19 @@ classes:
|
|||
description: Start index into the TimeSeries 'data' and 'timestamp' datasets
|
||||
of the referenced TimeSeries. The first dimension of those arrays is always
|
||||
time.
|
||||
multivalued: false
|
||||
range: int32
|
||||
required: false
|
||||
multivalued: false
|
||||
count:
|
||||
name: count
|
||||
description: Number of data samples available in this time series, during
|
||||
this epoch.
|
||||
multivalued: false
|
||||
range: int32
|
||||
required: false
|
||||
multivalued: false
|
||||
timeseries:
|
||||
name: timeseries
|
||||
description: the TimeSeries that this index applies to.
|
||||
multivalued: false
|
||||
range: TimeSeries
|
||||
required: false
|
||||
TimeIntervals__timeseries_index:
|
||||
name: TimeIntervals__timeseries_index
|
||||
description: Index for timeseries.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(timeseries_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: timeseries_index
|
||||
multivalued: false
|
||||
|
|
|
|||
|
|
@ -28,7 +28,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
notes:
|
||||
|
|
@ -45,7 +44,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(root)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: root
|
||||
|
|
@ -63,36 +61,36 @@ classes:
|
|||
The file can be created after the experiment was run, so this may differ
|
||||
from the experiment start time. Each modification to the nwb file adds a
|
||||
new entry to the array.'
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_modifications
|
||||
range: isodatetime
|
||||
required: true
|
||||
multivalued: false
|
||||
identifier:
|
||||
name: identifier
|
||||
description: A unique text identifier for the file. For example, concatenated
|
||||
lab name, file creation date/time and experimentalist, or a hash of these
|
||||
and/or other values. The goal is that the string should be unique to all
|
||||
other files.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
session_description:
|
||||
name: session_description
|
||||
description: A description of the experimental session and data in the file.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
session_start_time:
|
||||
name: session_start_time
|
||||
description: 'Date and time of the experiment/session start. The date is stored
|
||||
in UTC with local timezone offset as ISO 8601 extended formatted string:
|
||||
2018-09-28T14:43:54.123+02:00. Dates stored in UTC end in "Z" with no timezone
|
||||
offset. Date accuracy is up to milliseconds.'
|
||||
multivalued: false
|
||||
range: isodatetime
|
||||
required: true
|
||||
multivalued: false
|
||||
timestamps_reference_time:
|
||||
name: timestamps_reference_time
|
||||
description: 'Date and time corresponding to time zero of all timestamps.
|
||||
|
|
@ -100,9 +98,9 @@ classes:
|
|||
formatted string: 2018-09-28T14:43:54.123+02:00. Dates stored in UTC end
|
||||
in "Z" with no timezone offset. Date accuracy is up to milliseconds. All
|
||||
times stored in the file use this time as reference (i.e., time zero).'
|
||||
multivalued: false
|
||||
range: isodatetime
|
||||
required: true
|
||||
multivalued: false
|
||||
acquisition:
|
||||
name: acquisition
|
||||
description: Data streams recorded from the system, including ephys, ophys,
|
||||
|
|
@ -179,9 +177,9 @@ classes:
|
|||
an experiment. The stimulus group is organized so that one version of template
|
||||
stimuli can be stored and these be used multiple times. These templates
|
||||
can exist in the present file or can be linked to a remote library file.
|
||||
multivalued: false
|
||||
range: NWBFile__stimulus
|
||||
required: true
|
||||
multivalued: false
|
||||
general:
|
||||
name: general
|
||||
description: Experimental metadata, including protocol, notes and description
|
||||
|
|
@ -199,9 +197,9 @@ classes:
|
|||
datasets. All entries in the below table are to be included when data is
|
||||
present. Unused groups (e.g., intracellular_ephys in an optophysiology experiment)
|
||||
should not be created unless there is data to store within them.
|
||||
multivalued: false
|
||||
range: NWBFile__general
|
||||
required: true
|
||||
multivalued: false
|
||||
intervals:
|
||||
name: intervals
|
||||
description: Experimental intervals, whether that be logically distinct sub-experiments
|
||||
|
|
@ -219,9 +217,9 @@ classes:
|
|||
units:
|
||||
name: units
|
||||
description: Data about sorted spike units.
|
||||
multivalued: false
|
||||
range: Units
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
NWBFile__stimulus:
|
||||
name: NWBFile__stimulus
|
||||
|
|
@ -241,7 +239,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(stimulus)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: stimulus
|
||||
|
|
@ -284,129 +281,128 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(general)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: general
|
||||
data_collection:
|
||||
name: data_collection
|
||||
description: Notes about data collection and analysis.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
experiment_description:
|
||||
name: experiment_description
|
||||
description: General description of the experiment.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
experimenter:
|
||||
name: experimenter
|
||||
description: Name of person(s) who performed the experiment. Can also specify
|
||||
roles of different people involved.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_experimenters
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
institution:
|
||||
name: institution
|
||||
description: Institution(s) where experiment was performed.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
keywords:
|
||||
name: keywords
|
||||
description: Terms to search over.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_keywords
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
lab:
|
||||
name: lab
|
||||
description: Laboratory where experiment was performed.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
notes:
|
||||
name: notes
|
||||
description: Notes about the experiment.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
pharmacology:
|
||||
name: pharmacology
|
||||
description: Description of drugs used, including how and when they were administered.
|
||||
Anesthesia(s), painkiller(s), etc., plus dosage, concentration, etc.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
protocol:
|
||||
name: protocol
|
||||
description: Experimental protocol, if applicable. e.g., include IACUC protocol
|
||||
number.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
related_publications:
|
||||
name: related_publications
|
||||
description: Publication information. PMID, DOI, URL, etc.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_publications
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
session_id:
|
||||
name: session_id
|
||||
description: Lab-specific ID for the session.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
slices:
|
||||
name: slices
|
||||
description: Description of slices, including information about preparation
|
||||
thickness, orientation, temperature, and bath solution.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
source_script:
|
||||
name: source_script
|
||||
description: Script file or link to public source code used to create this
|
||||
NWB file.
|
||||
multivalued: false
|
||||
range: NWBFile__general__source_script
|
||||
required: false
|
||||
multivalued: false
|
||||
stimulus:
|
||||
name: stimulus
|
||||
description: Notes about stimuli, such as how and where they were presented.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
surgery:
|
||||
name: surgery
|
||||
description: Narrative description about surgery/surgeries, including date(s)
|
||||
and who performed surgery.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
virus:
|
||||
name: virus
|
||||
description: Information about virus(es) used in experiments, including virus
|
||||
ID, source, date made, injection location, volume, etc.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
lab_meta_data:
|
||||
name: lab_meta_data
|
||||
description: Place-holder than can be extended so that lab-specific meta-data
|
||||
can be placed in /general.
|
||||
multivalued: true
|
||||
range: LabMetaData
|
||||
required: false
|
||||
multivalued: true
|
||||
devices:
|
||||
name: devices
|
||||
description: Description of hardware devices used during experiment, e.g.,
|
||||
|
|
@ -420,21 +416,21 @@ classes:
|
|||
name: subject
|
||||
description: Information about the animal or person from which the data was
|
||||
measured.
|
||||
multivalued: false
|
||||
range: Subject
|
||||
required: false
|
||||
multivalued: false
|
||||
extracellular_ephys:
|
||||
name: extracellular_ephys
|
||||
description: Metadata related to extracellular electrophysiology.
|
||||
multivalued: false
|
||||
range: NWBFile__general__extracellular_ephys
|
||||
required: false
|
||||
multivalued: false
|
||||
intracellular_ephys:
|
||||
name: intracellular_ephys
|
||||
description: Metadata related to intracellular electrophysiology.
|
||||
multivalued: false
|
||||
range: NWBFile__general__intracellular_ephys
|
||||
required: false
|
||||
multivalued: false
|
||||
optogenetics:
|
||||
name: optogenetics
|
||||
description: Metadata describing optogenetic stimuluation.
|
||||
|
|
@ -459,7 +455,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(source_script)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: source_script
|
||||
|
|
@ -478,22 +473,21 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(extracellular_ephys)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: extracellular_ephys
|
||||
electrode_group:
|
||||
name: electrode_group
|
||||
description: Physical group of electrodes.
|
||||
multivalued: true
|
||||
range: ElectrodeGroup
|
||||
required: false
|
||||
multivalued: true
|
||||
electrodes:
|
||||
name: electrodes
|
||||
description: A table of all electrodes (i.e. channels) used for recording.
|
||||
multivalued: false
|
||||
range: NWBFile__general__extracellular_ephys__electrodes
|
||||
required: false
|
||||
multivalued: false
|
||||
NWBFile__general__extracellular_ephys__electrodes:
|
||||
name: NWBFile__general__extracellular_ephys__electrodes
|
||||
description: A table of all electrodes (i.e. channels) used for recording.
|
||||
|
|
@ -502,73 +496,117 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes
|
||||
x:
|
||||
name: x
|
||||
description: x coordinate of the channel location in the brain (+x is posterior).
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
y:
|
||||
name: y
|
||||
description: y coordinate of the channel location in the brain (+y is inferior).
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
z:
|
||||
name: z
|
||||
description: z coordinate of the channel location in the brain (+z is right).
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
imp:
|
||||
name: imp
|
||||
description: Impedance of the channel, in ohms.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
location:
|
||||
name: location
|
||||
description: Location of the electrode (channel). Specify the area, layer,
|
||||
comments on estimation of area/layer, stereotaxic coordinates if in vivo,
|
||||
etc. Use standard atlas names for anatomical regions when possible.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
filtering:
|
||||
name: filtering
|
||||
description: Description of hardware filtering, including the filter name
|
||||
and frequency cutoffs.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
group:
|
||||
name: group
|
||||
description: Reference to the ElectrodeGroup this electrode is a part of.
|
||||
multivalued: true
|
||||
range: ElectrodeGroup
|
||||
required: true
|
||||
multivalued: true
|
||||
group_name:
|
||||
name: group_name
|
||||
description: Name of the ElectrodeGroup this electrode is a part of.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
rel_x:
|
||||
name: rel_x
|
||||
description: x coordinate in electrode group
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
rel_y:
|
||||
name: rel_y
|
||||
description: y coordinate in electrode group
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
rel_z:
|
||||
name: rel_z
|
||||
description: z coordinate in electrode group
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
reference:
|
||||
name: reference
|
||||
description: Description of the reference used for this electrode.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
NWBFile__general__intracellular_ephys:
|
||||
name: NWBFile__general__intracellular_ephys
|
||||
description: Metadata related to intracellular electrophysiology.
|
||||
|
|
@ -576,7 +614,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(intracellular_ephys)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: intracellular_ephys
|
||||
|
|
@ -586,24 +623,24 @@ classes:
|
|||
of filtering used. Includes filtering type and parameters, frequency fall-off,
|
||||
etc. If this changes between TimeSeries, filter description should be stored
|
||||
as a text attribute for each TimeSeries.'
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
intracellular_electrode:
|
||||
name: intracellular_electrode
|
||||
description: An intracellular electrode.
|
||||
multivalued: true
|
||||
range: IntracellularElectrode
|
||||
required: false
|
||||
multivalued: true
|
||||
sweep_table:
|
||||
name: sweep_table
|
||||
description: '[DEPRECATED] Table used to group different PatchClampSeries.
|
||||
SweepTable is being replaced by IntracellularRecordingsTable and SimultaneousRecordingsTable
|
||||
tabels. Additional SequentialRecordingsTable, RepetitionsTable and ExperimentalConditions
|
||||
tables provide enhanced support for experiment metadata.'
|
||||
multivalued: false
|
||||
range: SweepTable
|
||||
required: false
|
||||
multivalued: false
|
||||
intracellular_recordings:
|
||||
name: intracellular_recordings
|
||||
description: A table to group together a stimulus and response from a single
|
||||
|
|
@ -618,42 +655,42 @@ classes:
|
|||
PatchClampSeries. However, the use of AD/DA channels that are not associated
|
||||
to an electrode is also common in intracellular electrophysiology, in which
|
||||
case other TimeSeries may be used.
|
||||
multivalued: false
|
||||
range: IntracellularRecordingsTable
|
||||
required: false
|
||||
multivalued: false
|
||||
simultaneous_recordings:
|
||||
name: simultaneous_recordings
|
||||
description: A table for grouping different intracellular recordings from
|
||||
the IntracellularRecordingsTable table together that were recorded simultaneously
|
||||
from different electrodes
|
||||
multivalued: false
|
||||
range: SimultaneousRecordingsTable
|
||||
required: false
|
||||
multivalued: false
|
||||
sequential_recordings:
|
||||
name: sequential_recordings
|
||||
description: A table for grouping different sequential recordings from the
|
||||
SimultaneousRecordingsTable table together. This is typically used to group
|
||||
together sequential recordings where the a sequence of stimuli of the same
|
||||
type with varying parameters have been presented in a sequence.
|
||||
multivalued: false
|
||||
range: SequentialRecordingsTable
|
||||
required: false
|
||||
multivalued: false
|
||||
repetitions:
|
||||
name: repetitions
|
||||
description: A table for grouping different sequential intracellular recordings
|
||||
together. With each SequentialRecording typically representing a particular
|
||||
type of stimulus, the RepetitionsTable table is typically used to group
|
||||
sets of stimuli applied in sequence.
|
||||
multivalued: false
|
||||
range: RepetitionsTable
|
||||
required: false
|
||||
multivalued: false
|
||||
experimental_conditions:
|
||||
name: experimental_conditions
|
||||
description: A table for grouping different intracellular recording repetitions
|
||||
together that belong to the same experimental experimental_conditions.
|
||||
multivalued: false
|
||||
range: ExperimentalConditionsTable
|
||||
required: false
|
||||
multivalued: false
|
||||
LabMetaData:
|
||||
name: LabMetaData
|
||||
description: Lab-specific meta-data.
|
||||
|
|
@ -661,7 +698,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -672,63 +708,62 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
age:
|
||||
name: age
|
||||
description: Age of subject. Can be supplied instead of 'date_of_birth'.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
date_of_birth:
|
||||
name: date_of_birth
|
||||
description: Date of birth of subject. Can be supplied instead of 'age'.
|
||||
multivalued: false
|
||||
range: isodatetime
|
||||
required: false
|
||||
multivalued: false
|
||||
description:
|
||||
name: description
|
||||
description: Description of subject and where subject came from (e.g., breeder,
|
||||
if animal).
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
genotype:
|
||||
name: genotype
|
||||
description: Genetic strain. If absent, assume Wild Type (WT).
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
sex:
|
||||
name: sex
|
||||
description: Gender of subject.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
species:
|
||||
name: species
|
||||
description: Species of subject.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
strain:
|
||||
name: strain
|
||||
description: Strain of subject.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
subject_id:
|
||||
name: subject_id
|
||||
description: ID of animal/person used/participating in experiment (lab convention).
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
weight:
|
||||
name: weight
|
||||
description: Weight at time of experiment, at time of surgery and at other
|
||||
important times.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -23,7 +23,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
stimulus_description:
|
||||
|
|
@ -37,16 +36,16 @@ classes:
|
|||
data:
|
||||
name: data
|
||||
description: Recorded voltage or current.
|
||||
multivalued: false
|
||||
range: PatchClampSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
gain:
|
||||
name: gain
|
||||
description: Gain of the recording, in units Volt/Amp (v-clamp) or Volt/Volt
|
||||
(c-clamp).
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
PatchClampSeries__data:
|
||||
name: PatchClampSeries__data
|
||||
|
|
@ -55,7 +54,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -80,33 +78,32 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Recorded voltage.
|
||||
multivalued: false
|
||||
range: CurrentClampSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
bias_current:
|
||||
name: bias_current
|
||||
description: Bias current, in amps.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
bridge_balance:
|
||||
name: bridge_balance
|
||||
description: Bridge balance, in ohms.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
capacitance_compensation:
|
||||
name: capacitance_compensation
|
||||
description: Capacitance compensation, in farads.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
CurrentClampSeries__data:
|
||||
name: CurrentClampSeries__data
|
||||
|
|
@ -115,7 +112,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -139,7 +135,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
stimulus_description:
|
||||
|
|
@ -150,21 +145,21 @@ classes:
|
|||
bias_current:
|
||||
name: bias_current
|
||||
description: Bias current, in amps, fixed to 0.0.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
bridge_balance:
|
||||
name: bridge_balance
|
||||
description: Bridge balance, in ohms, fixed to 0.0.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
capacitance_compensation:
|
||||
name: capacitance_compensation
|
||||
description: Capacitance compensation, in farads, fixed to 0.0.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
CurrentClampStimulusSeries:
|
||||
name: CurrentClampStimulusSeries
|
||||
|
|
@ -173,15 +168,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Stimulus current applied.
|
||||
multivalued: false
|
||||
range: CurrentClampStimulusSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
CurrentClampStimulusSeries__data:
|
||||
name: CurrentClampStimulusSeries__data
|
||||
|
|
@ -190,7 +184,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -213,57 +206,56 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Recorded current.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
capacitance_fast:
|
||||
name: capacitance_fast
|
||||
description: Fast capacitance, in farads.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__capacitance_fast
|
||||
required: false
|
||||
multivalued: false
|
||||
capacitance_slow:
|
||||
name: capacitance_slow
|
||||
description: Slow capacitance, in farads.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__capacitance_slow
|
||||
required: false
|
||||
multivalued: false
|
||||
resistance_comp_bandwidth:
|
||||
name: resistance_comp_bandwidth
|
||||
description: Resistance compensation bandwidth, in hertz.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__resistance_comp_bandwidth
|
||||
required: false
|
||||
multivalued: false
|
||||
resistance_comp_correction:
|
||||
name: resistance_comp_correction
|
||||
description: Resistance compensation correction, in percent.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__resistance_comp_correction
|
||||
required: false
|
||||
multivalued: false
|
||||
resistance_comp_prediction:
|
||||
name: resistance_comp_prediction
|
||||
description: Resistance compensation prediction, in percent.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__resistance_comp_prediction
|
||||
required: false
|
||||
multivalued: false
|
||||
whole_cell_capacitance_comp:
|
||||
name: whole_cell_capacitance_comp
|
||||
description: Whole cell capacitance compensation, in farads.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__whole_cell_capacitance_comp
|
||||
required: false
|
||||
multivalued: false
|
||||
whole_cell_series_resistance_comp:
|
||||
name: whole_cell_series_resistance_comp
|
||||
description: Whole cell series resistance compensation, in ohms.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__whole_cell_series_resistance_comp
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
VoltageClampSeries__data:
|
||||
name: VoltageClampSeries__data
|
||||
|
|
@ -272,7 +264,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -293,7 +284,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(capacitance_fast)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: capacitance_fast
|
||||
|
|
@ -312,7 +302,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(capacitance_slow)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: capacitance_slow
|
||||
|
|
@ -331,7 +320,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(resistance_comp_bandwidth)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: resistance_comp_bandwidth
|
||||
|
|
@ -351,7 +339,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(resistance_comp_correction)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: resistance_comp_correction
|
||||
|
|
@ -371,7 +358,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(resistance_comp_prediction)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: resistance_comp_prediction
|
||||
|
|
@ -391,7 +377,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(whole_cell_capacitance_comp)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: whole_cell_capacitance_comp
|
||||
|
|
@ -411,7 +396,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(whole_cell_series_resistance_comp)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: whole_cell_series_resistance_comp
|
||||
|
|
@ -431,15 +415,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Stimulus voltage applied.
|
||||
multivalued: false
|
||||
range: VoltageClampStimulusSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
VoltageClampStimulusSeries__data:
|
||||
name: VoltageClampStimulusSeries__data
|
||||
|
|
@ -448,7 +431,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -469,53 +451,52 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
name: description
|
||||
description: Description of electrode (e.g., whole-cell, sharp, etc.).
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
filtering:
|
||||
name: filtering
|
||||
description: Electrode specific filtering.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
initial_access_resistance:
|
||||
name: initial_access_resistance
|
||||
description: Initial access resistance.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
location:
|
||||
name: location
|
||||
description: Location of the electrode. Specify the area, layer, comments
|
||||
on estimation of area/layer, stereotaxic coordinates if in vivo, etc. Use
|
||||
standard atlas names for anatomical regions when possible.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
resistance:
|
||||
name: resistance
|
||||
description: Electrode resistance, in ohms.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
seal:
|
||||
name: seal
|
||||
description: Information about seal used for recording.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
slice:
|
||||
name: slice
|
||||
description: Information about slice used for recording.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
SweepTable:
|
||||
name: SweepTable
|
||||
|
|
@ -527,38 +508,34 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
sweep_number:
|
||||
name: sweep_number
|
||||
description: Sweep number of the PatchClampSeries in that row.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: uint32
|
||||
required: true
|
||||
multivalued: false
|
||||
series:
|
||||
name: series
|
||||
description: The PatchClampSeries with the sweep number in that row.
|
||||
multivalued: true
|
||||
range: PatchClampSeries
|
||||
required: true
|
||||
multivalued: true
|
||||
series_index:
|
||||
name: series_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index for series.
|
||||
range: VectorIndex
|
||||
required: true
|
||||
multivalued: false
|
||||
range: SweepTable__series_index
|
||||
required: true
|
||||
tree_root: true
|
||||
SweepTable__series_index:
|
||||
name: SweepTable__series_index
|
||||
description: Index for series.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(series_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: series_index
|
||||
IntracellularElectrodesTable:
|
||||
name: IntracellularElectrodesTable
|
||||
description: Table for storing intracellular electrode related metadata.
|
||||
|
|
@ -566,7 +543,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -576,8 +552,9 @@ classes:
|
|||
electrode:
|
||||
name: electrode
|
||||
description: Column for storing the reference to the intracellular electrode.
|
||||
multivalued: true
|
||||
range: IntracellularElectrode
|
||||
required: true
|
||||
multivalued: true
|
||||
tree_root: true
|
||||
IntracellularStimuliTable:
|
||||
name: IntracellularStimuliTable
|
||||
|
|
@ -586,7 +563,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -595,25 +571,16 @@ classes:
|
|||
range: text
|
||||
stimulus:
|
||||
name: stimulus
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Column storing the reference to the recorded stimulus for the
|
||||
recording (rows).
|
||||
range: TimeSeriesReferenceVectorData
|
||||
required: true
|
||||
multivalued: false
|
||||
range: IntracellularStimuliTable__stimulus
|
||||
required: true
|
||||
tree_root: true
|
||||
IntracellularStimuliTable__stimulus:
|
||||
name: IntracellularStimuliTable__stimulus
|
||||
description: Column storing the reference to the recorded stimulus for the recording
|
||||
(rows).
|
||||
is_a: TimeSeriesReferenceVectorData
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(stimulus)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: stimulus
|
||||
IntracellularResponsesTable:
|
||||
name: IntracellularResponsesTable
|
||||
description: Table for storing intracellular response related metadata.
|
||||
|
|
@ -621,7 +588,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -630,25 +596,16 @@ classes:
|
|||
range: text
|
||||
response:
|
||||
name: response
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Column storing the reference to the recorded response for the
|
||||
recording (rows)
|
||||
range: TimeSeriesReferenceVectorData
|
||||
required: true
|
||||
multivalued: false
|
||||
range: IntracellularResponsesTable__response
|
||||
required: true
|
||||
tree_root: true
|
||||
IntracellularResponsesTable__response:
|
||||
name: IntracellularResponsesTable__response
|
||||
description: Column storing the reference to the recorded response for the recording
|
||||
(rows)
|
||||
is_a: TimeSeriesReferenceVectorData
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(response)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: response
|
||||
IntracellularRecordingsTable:
|
||||
name: IntracellularRecordingsTable
|
||||
description: A table to group together a stimulus and response from a single electrode
|
||||
|
|
@ -667,7 +624,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(intracellular_recordings)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: intracellular_recordings
|
||||
|
|
@ -679,21 +635,21 @@ classes:
|
|||
electrodes:
|
||||
name: electrodes
|
||||
description: Table for storing intracellular electrode related metadata.
|
||||
multivalued: false
|
||||
range: IntracellularElectrodesTable
|
||||
required: true
|
||||
multivalued: false
|
||||
stimuli:
|
||||
name: stimuli
|
||||
description: Table for storing intracellular stimulus related metadata.
|
||||
multivalued: false
|
||||
range: IntracellularStimuliTable
|
||||
required: true
|
||||
multivalued: false
|
||||
responses:
|
||||
name: responses
|
||||
description: Table for storing intracellular response related metadata.
|
||||
multivalued: false
|
||||
range: IntracellularResponsesTable
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
SimultaneousRecordingsTable:
|
||||
name: SimultaneousRecordingsTable
|
||||
|
|
@ -705,7 +661,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(simultaneous_recordings)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: simultaneous_recordings
|
||||
|
|
@ -713,15 +668,19 @@ classes:
|
|||
name: recordings
|
||||
description: A reference to one or more rows in the IntracellularRecordingsTable
|
||||
table.
|
||||
multivalued: false
|
||||
range: SimultaneousRecordingsTable__recordings
|
||||
required: true
|
||||
multivalued: false
|
||||
recordings_index:
|
||||
name: recordings_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index dataset for the recordings column.
|
||||
multivalued: false
|
||||
range: SimultaneousRecordingsTable__recordings_index
|
||||
range: VectorIndex
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
SimultaneousRecordingsTable__recordings:
|
||||
name: SimultaneousRecordingsTable__recordings
|
||||
|
|
@ -732,7 +691,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(recordings)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: recordings
|
||||
|
|
@ -742,18 +700,6 @@ classes:
|
|||
table region applies to. This specializes the attribute inherited from DynamicTableRegion
|
||||
to fix the type of table that can be referenced here.
|
||||
range: IntracellularRecordingsTable
|
||||
SimultaneousRecordingsTable__recordings_index:
|
||||
name: SimultaneousRecordingsTable__recordings_index
|
||||
description: Index dataset for the recordings column.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(recordings_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: recordings_index
|
||||
SequentialRecordingsTable:
|
||||
name: SequentialRecordingsTable
|
||||
description: A table for grouping different sequential recordings from the SimultaneousRecordingsTable
|
||||
|
|
@ -765,7 +711,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(sequential_recordings)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: sequential_recordings
|
||||
|
|
@ -773,20 +718,28 @@ classes:
|
|||
name: simultaneous_recordings
|
||||
description: A reference to one or more rows in the SimultaneousRecordingsTable
|
||||
table.
|
||||
multivalued: false
|
||||
range: SequentialRecordingsTable__simultaneous_recordings
|
||||
required: true
|
||||
multivalued: false
|
||||
simultaneous_recordings_index:
|
||||
name: simultaneous_recordings_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index dataset for the simultaneous_recordings column.
|
||||
multivalued: false
|
||||
range: SequentialRecordingsTable__simultaneous_recordings_index
|
||||
range: VectorIndex
|
||||
required: true
|
||||
multivalued: false
|
||||
stimulus_type:
|
||||
name: stimulus_type
|
||||
description: The type of stimulus used for the sequential recording.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
SequentialRecordingsTable__simultaneous_recordings:
|
||||
name: SequentialRecordingsTable__simultaneous_recordings
|
||||
|
|
@ -797,7 +750,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(simultaneous_recordings)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: simultaneous_recordings
|
||||
|
|
@ -807,18 +759,6 @@ classes:
|
|||
table region applies to. This specializes the attribute inherited from DynamicTableRegion
|
||||
to fix the type of table that can be referenced here.
|
||||
range: SimultaneousRecordingsTable
|
||||
SequentialRecordingsTable__simultaneous_recordings_index:
|
||||
name: SequentialRecordingsTable__simultaneous_recordings_index
|
||||
description: Index dataset for the simultaneous_recordings column.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(simultaneous_recordings_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: simultaneous_recordings_index
|
||||
RepetitionsTable:
|
||||
name: RepetitionsTable
|
||||
description: A table for grouping different sequential intracellular recordings
|
||||
|
|
@ -830,7 +770,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(repetitions)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: repetitions
|
||||
|
|
@ -838,15 +777,19 @@ classes:
|
|||
name: sequential_recordings
|
||||
description: A reference to one or more rows in the SequentialRecordingsTable
|
||||
table.
|
||||
multivalued: false
|
||||
range: RepetitionsTable__sequential_recordings
|
||||
required: true
|
||||
multivalued: false
|
||||
sequential_recordings_index:
|
||||
name: sequential_recordings_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index dataset for the sequential_recordings column.
|
||||
multivalued: false
|
||||
range: RepetitionsTable__sequential_recordings_index
|
||||
range: VectorIndex
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
RepetitionsTable__sequential_recordings:
|
||||
name: RepetitionsTable__sequential_recordings
|
||||
|
|
@ -857,7 +800,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(sequential_recordings)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: sequential_recordings
|
||||
|
|
@ -867,18 +809,6 @@ classes:
|
|||
region applies to. This specializes the attribute inherited from DynamicTableRegion
|
||||
to fix the type of table that can be referenced here.
|
||||
range: SequentialRecordingsTable
|
||||
RepetitionsTable__sequential_recordings_index:
|
||||
name: RepetitionsTable__sequential_recordings_index
|
||||
description: Index dataset for the sequential_recordings column.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(sequential_recordings_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: sequential_recordings_index
|
||||
ExperimentalConditionsTable:
|
||||
name: ExperimentalConditionsTable
|
||||
description: A table for grouping different intracellular recording repetitions
|
||||
|
|
@ -888,22 +818,25 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(experimental_conditions)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: experimental_conditions
|
||||
repetitions:
|
||||
name: repetitions
|
||||
description: A reference to one or more rows in the RepetitionsTable table.
|
||||
multivalued: false
|
||||
range: ExperimentalConditionsTable__repetitions
|
||||
required: true
|
||||
multivalued: false
|
||||
repetitions_index:
|
||||
name: repetitions_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index dataset for the repetitions column.
|
||||
multivalued: false
|
||||
range: ExperimentalConditionsTable__repetitions_index
|
||||
range: VectorIndex
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ExperimentalConditionsTable__repetitions:
|
||||
name: ExperimentalConditionsTable__repetitions
|
||||
|
|
@ -913,7 +846,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(repetitions)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: repetitions
|
||||
|
|
@ -923,15 +855,3 @@ classes:
|
|||
applies to. This specializes the attribute inherited from DynamicTableRegion
|
||||
to fix the type of table that can be referenced here.
|
||||
range: RepetitionsTable
|
||||
ExperimentalConditionsTable__repetitions_index:
|
||||
name: ExperimentalConditionsTable__repetitions_index
|
||||
description: Index dataset for the repetitions column.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(repetitions_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: repetitions_index
|
||||
|
|
|
|||
|
|
@ -21,7 +21,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -32,7 +31,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -43,7 +41,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -59,16 +56,15 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Binary data representing images across frames. If data are stored
|
||||
in an external file, this should be an empty 3D array.
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -84,12 +80,12 @@ classes:
|
|||
dimension:
|
||||
name: dimension
|
||||
description: Number of pixels on x, y, (and z) axes.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: rank
|
||||
range: int32
|
||||
required: false
|
||||
multivalued: false
|
||||
external_file:
|
||||
name: external_file
|
||||
description: Paths to one or more external file(s). The field is only present
|
||||
|
|
@ -97,18 +93,18 @@ classes:
|
|||
in the file system as one or more image file(s). This field should NOT be
|
||||
used if the image is stored in another NWB file and that file is linked
|
||||
to this file.
|
||||
multivalued: false
|
||||
range: ImageSeries__external_file
|
||||
required: false
|
||||
multivalued: false
|
||||
format:
|
||||
name: format
|
||||
description: Format of image. If this is 'external', then the attribute 'external_file'
|
||||
contains the path information to the image files. If this is 'raw', then
|
||||
the raw (single-channel) binary data is stored in the 'data' dataset. If
|
||||
this attribute is not present, then the default format='raw' case is assumed.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ImageSeries__external_file:
|
||||
name: ImageSeries__external_file
|
||||
|
|
@ -120,7 +116,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(external_file)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: external_file
|
||||
|
|
@ -156,7 +151,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -171,21 +165,20 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
distance:
|
||||
name: distance
|
||||
description: Distance from camera/monitor to target/eye.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
field_of_view:
|
||||
name: field_of_view
|
||||
description: Width, height and depth of image, or imaged area, in meters.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -198,9 +191,9 @@ classes:
|
|||
data:
|
||||
name: data
|
||||
description: Images presented to subject, either grayscale or RGB
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -218,9 +211,9 @@ classes:
|
|||
name: orientation
|
||||
description: Description of image relative to some reference frame (e.g.,
|
||||
which way is up). Must also specify frame of reference.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
IndexSeries:
|
||||
name: IndexSeries
|
||||
|
|
@ -234,16 +227,15 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Index of the frame in the referenced ImageSeries.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: int32
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -19,53 +19,67 @@ types:
|
|||
float32:
|
||||
name: float32
|
||||
typeof: float
|
||||
repr: np.float32
|
||||
float64:
|
||||
name: float64
|
||||
typeof: double
|
||||
repr: np.float64
|
||||
long:
|
||||
name: long
|
||||
typeof: integer
|
||||
repr: np.longlong
|
||||
int64:
|
||||
name: int64
|
||||
typeof: integer
|
||||
repr: np.int64
|
||||
int:
|
||||
name: int
|
||||
typeof: integer
|
||||
int32:
|
||||
name: int32
|
||||
typeof: integer
|
||||
repr: np.int32
|
||||
int16:
|
||||
name: int16
|
||||
typeof: integer
|
||||
repr: np.int16
|
||||
short:
|
||||
name: short
|
||||
typeof: integer
|
||||
repr: np.int16
|
||||
int8:
|
||||
name: int8
|
||||
typeof: integer
|
||||
repr: np.int8
|
||||
uint:
|
||||
name: uint
|
||||
typeof: integer
|
||||
repr: np.uint64
|
||||
minimum_value: 0
|
||||
uint32:
|
||||
name: uint32
|
||||
typeof: integer
|
||||
repr: np.uint32
|
||||
minimum_value: 0
|
||||
uint16:
|
||||
name: uint16
|
||||
typeof: integer
|
||||
repr: np.uint16
|
||||
minimum_value: 0
|
||||
uint8:
|
||||
name: uint8
|
||||
typeof: integer
|
||||
repr: np.uint8
|
||||
minimum_value: 0
|
||||
uint64:
|
||||
name: uint64
|
||||
typeof: integer
|
||||
repr: np.uint64
|
||||
minimum_value: 0
|
||||
numeric:
|
||||
name: numeric
|
||||
typeof: float
|
||||
repr: np.number
|
||||
text:
|
||||
name: text
|
||||
typeof: string
|
||||
|
|
@ -87,58 +101,7 @@ types:
|
|||
isodatetime:
|
||||
name: isodatetime
|
||||
typeof: datetime
|
||||
enums:
|
||||
FlatDType:
|
||||
name: FlatDType
|
||||
permissible_values:
|
||||
float:
|
||||
text: float
|
||||
float32:
|
||||
text: float32
|
||||
double:
|
||||
text: double
|
||||
float64:
|
||||
text: float64
|
||||
long:
|
||||
text: long
|
||||
int64:
|
||||
text: int64
|
||||
int:
|
||||
text: int
|
||||
int32:
|
||||
text: int32
|
||||
int16:
|
||||
text: int16
|
||||
short:
|
||||
text: short
|
||||
int8:
|
||||
text: int8
|
||||
uint:
|
||||
text: uint
|
||||
uint32:
|
||||
text: uint32
|
||||
uint16:
|
||||
text: uint16
|
||||
uint8:
|
||||
text: uint8
|
||||
uint64:
|
||||
text: uint64
|
||||
numeric:
|
||||
text: numeric
|
||||
text:
|
||||
text: text
|
||||
utf:
|
||||
text: utf
|
||||
utf8:
|
||||
text: utf8
|
||||
utf_8:
|
||||
text: utf_8
|
||||
ascii:
|
||||
text: ascii
|
||||
bool:
|
||||
text: bool
|
||||
isodatetime:
|
||||
text: isodatetime
|
||||
repr: np.datetime64
|
||||
classes:
|
||||
AnyType:
|
||||
name: AnyType
|
||||
|
|
|
|||
|
|
@ -30,33 +30,32 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Values of each feature at each time.
|
||||
multivalued: false
|
||||
range: AbstractFeatureSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
feature_units:
|
||||
name: feature_units
|
||||
description: Units of each feature.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_features
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
features:
|
||||
name: features
|
||||
description: Description of the features represented in TimeSeries::data.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_features
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
AbstractFeatureSeries__data:
|
||||
name: AbstractFeatureSeries__data
|
||||
|
|
@ -65,7 +64,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -96,18 +94,17 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Annotations made during an experiment.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
IntervalSeries:
|
||||
name: IntervalSeries
|
||||
|
|
@ -122,18 +119,17 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Use values >0 if interval started, <0 if interval ended.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: int8
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
DecompositionSeries:
|
||||
name: DecompositionSeries
|
||||
|
|
@ -142,35 +138,38 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Data decomposed into frequency bands.
|
||||
multivalued: false
|
||||
range: DecompositionSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
metric:
|
||||
name: metric
|
||||
description: The metric used, e.g. phase, amplitude, power.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
source_channels:
|
||||
name: source_channels
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: DynamicTableRegion pointer to the channels that this decomposition
|
||||
series was generated from.
|
||||
multivalued: false
|
||||
range: DecompositionSeries__source_channels
|
||||
range: DynamicTableRegion
|
||||
required: false
|
||||
multivalued: false
|
||||
bands:
|
||||
name: bands
|
||||
description: Table for describing the bands that this series was generated
|
||||
from. There should be one row in this table for each band.
|
||||
multivalued: false
|
||||
range: DecompositionSeries__bands
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
DecompositionSeries__data:
|
||||
name: DecompositionSeries__data
|
||||
|
|
@ -179,7 +178,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -197,19 +195,6 @@ classes:
|
|||
- alias: num_channels
|
||||
- alias: num_bands
|
||||
range: numeric
|
||||
DecompositionSeries__source_channels:
|
||||
name: DecompositionSeries__source_channels
|
||||
description: DynamicTableRegion pointer to the channels that this decomposition
|
||||
series was generated from.
|
||||
is_a: DynamicTableRegion
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(source_channels)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: source_channels
|
||||
DecompositionSeries__bands:
|
||||
name: DecompositionSeries__bands
|
||||
description: Table for describing the bands that this series was generated from.
|
||||
|
|
@ -219,20 +204,22 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(bands)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: bands
|
||||
band_name:
|
||||
name: band_name
|
||||
description: Name of the band, e.g. theta.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
band_limits:
|
||||
name: band_limits
|
||||
description: Low and high limit of each band in Hz. If it is a Gaussian filter,
|
||||
use 2 SD on either side of the center.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_bands
|
||||
|
|
@ -240,24 +227,25 @@ classes:
|
|||
exact_cardinality: 2
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
band_mean:
|
||||
name: band_mean
|
||||
description: The mean Gaussian filters, in Hz.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_bands
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
band_stdev:
|
||||
name: band_stdev
|
||||
description: The standard deviation of Gaussian filters, in Hz.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_bands
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
Units:
|
||||
name: Units
|
||||
description: Data about spiking units. Event times of observed units (e.g. cell,
|
||||
|
|
@ -267,31 +255,37 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(Units)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
spike_times_index:
|
||||
name: spike_times_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into the spike_times dataset.
|
||||
multivalued: false
|
||||
range: Units__spike_times_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
spike_times:
|
||||
name: spike_times
|
||||
description: Spike times for each unit.
|
||||
multivalued: false
|
||||
range: Units__spike_times
|
||||
required: false
|
||||
multivalued: false
|
||||
obs_intervals_index:
|
||||
name: obs_intervals_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into the obs_intervals dataset.
|
||||
multivalued: false
|
||||
range: Units__obs_intervals_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
obs_intervals:
|
||||
name: obs_intervals
|
||||
description: Observation intervals for each unit.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_intervals
|
||||
|
|
@ -299,29 +293,39 @@ classes:
|
|||
exact_cardinality: 2
|
||||
range: float64
|
||||
required: false
|
||||
multivalued: false
|
||||
electrodes_index:
|
||||
name: electrodes_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into electrodes.
|
||||
multivalued: false
|
||||
range: Units__electrodes_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
electrodes:
|
||||
name: electrodes
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Electrode that each spike unit came from, specified using a DynamicTableRegion.
|
||||
multivalued: false
|
||||
range: Units__electrodes
|
||||
range: DynamicTableRegion
|
||||
required: false
|
||||
multivalued: false
|
||||
electrode_group:
|
||||
name: electrode_group
|
||||
description: Electrode group that each spike unit came from.
|
||||
multivalued: true
|
||||
range: ElectrodeGroup
|
||||
required: false
|
||||
multivalued: true
|
||||
waveform_mean:
|
||||
name: waveform_mean
|
||||
description: Spike waveform mean for each spike unit.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -335,9 +339,9 @@ classes:
|
|||
waveform_sd:
|
||||
name: waveform_sd
|
||||
description: Spike waveform standard deviation for each spike unit.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -373,40 +377,36 @@ classes:
|
|||
order of the waveforms within a given unit x spike event should be in the
|
||||
same order as the electrodes referenced in the 'electrodes' column of this
|
||||
table. The number of samples for each waveform must be the same.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_waveforms
|
||||
- alias: num_samples
|
||||
range: numeric
|
||||
required: false
|
||||
multivalued: false
|
||||
waveforms_index:
|
||||
name: waveforms_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into the waveforms dataset. One value for every spike event.
|
||||
See 'waveforms' for more detail.
|
||||
multivalued: false
|
||||
range: Units__waveforms_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
waveforms_index_index:
|
||||
name: waveforms_index_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into the waveforms_index dataset. One value for every unit
|
||||
(row in the table). See 'waveforms' for more detail.
|
||||
multivalued: false
|
||||
range: Units__waveforms_index_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
Units__spike_times_index:
|
||||
name: Units__spike_times_index
|
||||
description: Index into the spike_times dataset.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(spike_times_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: spike_times_index
|
||||
Units__spike_times:
|
||||
name: Units__spike_times
|
||||
description: Spike times for each unit.
|
||||
|
|
@ -415,7 +415,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(spike_times)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: spike_times
|
||||
|
|
@ -427,65 +426,3 @@ classes:
|
|||
if the acquisition time series was smoothed/interpolated and it is possible
|
||||
for the spike time to be between samples.
|
||||
range: float64
|
||||
Units__obs_intervals_index:
|
||||
name: Units__obs_intervals_index
|
||||
description: Index into the obs_intervals dataset.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(obs_intervals_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: obs_intervals_index
|
||||
Units__electrodes_index:
|
||||
name: Units__electrodes_index
|
||||
description: Index into electrodes.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes_index
|
||||
Units__electrodes:
|
||||
name: Units__electrodes
|
||||
description: Electrode that each spike unit came from, specified using a DynamicTableRegion.
|
||||
is_a: DynamicTableRegion
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes
|
||||
Units__waveforms_index:
|
||||
name: Units__waveforms_index
|
||||
description: Index into the waveforms dataset. One value for every spike event.
|
||||
See 'waveforms' for more detail.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(waveforms_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: waveforms_index
|
||||
Units__waveforms_index_index:
|
||||
name: Units__waveforms_index_index
|
||||
description: Index into the waveforms_index dataset. One value for every unit
|
||||
(row in the table). See 'waveforms' for more detail.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(waveforms_index_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: waveforms_index_index
|
||||
|
|
|
|||
|
|
@ -21,18 +21,17 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Applied power for optogenetic stimulus, in watts.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
OptogeneticStimulusSite:
|
||||
name: OptogeneticStimulusSite
|
||||
|
|
@ -41,27 +40,26 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
name: description
|
||||
description: Description of stimulation site.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
excitation_lambda:
|
||||
name: excitation_lambda
|
||||
description: Excitation wavelength, in nm.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
location:
|
||||
name: location
|
||||
description: Location of the stimulation site. Specify the area, layer, comments
|
||||
on estimation of area/layer, stereotaxic coordinates if in vivo, etc. Use
|
||||
standard atlas names for anatomical regions when possible.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -23,7 +23,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
pmt_gain:
|
||||
|
|
@ -39,9 +38,9 @@ classes:
|
|||
field_of_view:
|
||||
name: field_of_view
|
||||
description: Width, height and depth of image, or imaged area, in meters.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -60,15 +59,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Signals from ROIs.
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -79,25 +77,16 @@ classes:
|
|||
- alias: num_rois
|
||||
rois:
|
||||
name: rois
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: DynamicTableRegion referencing into an ROITable containing information
|
||||
on the ROIs stored in this timeseries.
|
||||
range: DynamicTableRegion
|
||||
required: true
|
||||
multivalued: false
|
||||
range: RoiResponseSeries__rois
|
||||
required: true
|
||||
tree_root: true
|
||||
RoiResponseSeries__rois:
|
||||
name: RoiResponseSeries__rois
|
||||
description: DynamicTableRegion referencing into an ROITable containing information
|
||||
on the ROIs stored in this timeseries.
|
||||
is_a: DynamicTableRegion
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(rois)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: rois
|
||||
DfOverF:
|
||||
name: DfOverF
|
||||
description: dF/F information about a region of interest (ROI). Storage hierarchy
|
||||
|
|
@ -154,56 +143,51 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
image_mask:
|
||||
name: image_mask
|
||||
description: ROI masks for each ROI. Each image mask is the size of the original
|
||||
imaging plane (or volume) and members of the ROI are finite non-zero.
|
||||
multivalued: false
|
||||
range: AnyType
|
||||
range: PlaneSegmentation__image_mask
|
||||
required: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
- alias: num_roi
|
||||
- alias: num_x
|
||||
- alias: num_y
|
||||
- array:
|
||||
dimensions:
|
||||
- alias: num_roi
|
||||
- alias: num_x
|
||||
- alias: num_y
|
||||
- alias: num_z
|
||||
multivalued: false
|
||||
pixel_mask_index:
|
||||
name: pixel_mask_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into pixel_mask.
|
||||
multivalued: false
|
||||
range: PlaneSegmentation__pixel_mask_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
pixel_mask:
|
||||
name: pixel_mask
|
||||
description: 'Pixel masks for each ROI: a list of indices and weights for
|
||||
the ROI. Pixel masks are concatenated and parsing of this dataset is maintained
|
||||
by the PlaneSegmentation'
|
||||
multivalued: false
|
||||
range: PlaneSegmentation__pixel_mask
|
||||
required: false
|
||||
multivalued: false
|
||||
voxel_mask_index:
|
||||
name: voxel_mask_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into voxel_mask.
|
||||
multivalued: false
|
||||
range: PlaneSegmentation__voxel_mask_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
voxel_mask:
|
||||
name: voxel_mask
|
||||
description: 'Voxel masks for each ROI: a list of indices and weights for
|
||||
the ROI. Voxel masks are concatenated and parsing of this dataset is maintained
|
||||
by the PlaneSegmentation'
|
||||
multivalued: false
|
||||
range: PlaneSegmentation__voxel_mask
|
||||
required: false
|
||||
multivalued: false
|
||||
reference_images:
|
||||
name: reference_images
|
||||
description: Image stacks that the segmentation masks apply to.
|
||||
|
|
@ -213,18 +197,18 @@ classes:
|
|||
any_of:
|
||||
- range: ImageSeries
|
||||
tree_root: true
|
||||
PlaneSegmentation__pixel_mask_index:
|
||||
name: PlaneSegmentation__pixel_mask_index
|
||||
description: Index into pixel_mask.
|
||||
is_a: VectorIndex
|
||||
PlaneSegmentation__image_mask:
|
||||
name: PlaneSegmentation__image_mask
|
||||
description: ROI masks for each ROI. Each image mask is the size of the original
|
||||
imaging plane (or volume) and members of the ROI are finite non-zero.
|
||||
is_a: VectorData
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(pixel_mask_index)
|
||||
identifier: true
|
||||
ifabsent: string(image_mask)
|
||||
range: string
|
||||
required: true
|
||||
equals_string: pixel_mask_index
|
||||
equals_string: image_mask
|
||||
PlaneSegmentation__pixel_mask:
|
||||
name: PlaneSegmentation__pixel_mask
|
||||
description: 'Pixel masks for each ROI: a list of indices and weights for the
|
||||
|
|
@ -235,40 +219,27 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(pixel_mask)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: pixel_mask
|
||||
x:
|
||||
name: x
|
||||
description: Pixel x-coordinate.
|
||||
multivalued: false
|
||||
range: uint32
|
||||
required: false
|
||||
multivalued: false
|
||||
y:
|
||||
name: y
|
||||
description: Pixel y-coordinate.
|
||||
multivalued: false
|
||||
range: uint32
|
||||
required: false
|
||||
multivalued: false
|
||||
weight:
|
||||
name: weight
|
||||
description: Weight of the pixel.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
PlaneSegmentation__voxel_mask_index:
|
||||
name: PlaneSegmentation__voxel_mask_index
|
||||
description: Index into voxel_mask.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(voxel_mask_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: voxel_mask_index
|
||||
multivalued: false
|
||||
PlaneSegmentation__voxel_mask:
|
||||
name: PlaneSegmentation__voxel_mask
|
||||
description: 'Voxel masks for each ROI: a list of indices and weights for the
|
||||
|
|
@ -279,34 +250,33 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(voxel_mask)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: voxel_mask
|
||||
x:
|
||||
name: x
|
||||
description: Voxel x-coordinate.
|
||||
multivalued: false
|
||||
range: uint32
|
||||
required: false
|
||||
multivalued: false
|
||||
y:
|
||||
name: y
|
||||
description: Voxel y-coordinate.
|
||||
multivalued: false
|
||||
range: uint32
|
||||
required: false
|
||||
multivalued: false
|
||||
z:
|
||||
name: z
|
||||
description: Voxel z-coordinate.
|
||||
multivalued: false
|
||||
range: uint32
|
||||
required: false
|
||||
multivalued: false
|
||||
weight:
|
||||
name: weight
|
||||
description: Weight of the voxel.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
ImagingPlane:
|
||||
name: ImagingPlane
|
||||
description: An imaging plane and its metadata.
|
||||
|
|
@ -327,21 +297,20 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
name: description
|
||||
description: Description or other notes about the channel.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
emission_lambda:
|
||||
name: emission_lambda
|
||||
description: Emission wavelength for channel, in nm.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
MotionCorrection:
|
||||
name: MotionCorrection
|
||||
|
|
@ -365,20 +334,19 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
corrected:
|
||||
name: corrected
|
||||
description: Image stack with frames shifted to the common coordinates.
|
||||
multivalued: false
|
||||
range: ImageSeries
|
||||
required: true
|
||||
multivalued: false
|
||||
xy_translation:
|
||||
name: xy_translation
|
||||
description: Stores the x,y delta necessary to align each frame to the common
|
||||
coordinates, for example, to align each frame to a reference image.
|
||||
multivalued: false
|
||||
range: TimeSeries
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -29,68 +29,67 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(ImagingRetinotopy)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
axis_1_phase_map:
|
||||
name: axis_1_phase_map
|
||||
description: Phase response to stimulus on the first measured axis.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__axis_1_phase_map
|
||||
required: true
|
||||
multivalued: false
|
||||
axis_1_power_map:
|
||||
name: axis_1_power_map
|
||||
description: Power response on the first measured axis. Response is scaled
|
||||
so 0.0 is no power in the response and 1.0 is maximum relative power.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__axis_1_power_map
|
||||
required: false
|
||||
multivalued: false
|
||||
axis_2_phase_map:
|
||||
name: axis_2_phase_map
|
||||
description: Phase response to stimulus on the second measured axis.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__axis_2_phase_map
|
||||
required: true
|
||||
multivalued: false
|
||||
axis_2_power_map:
|
||||
name: axis_2_power_map
|
||||
description: Power response on the second measured axis. Response is scaled
|
||||
so 0.0 is no power in the response and 1.0 is maximum relative power.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__axis_2_power_map
|
||||
required: false
|
||||
multivalued: false
|
||||
axis_descriptions:
|
||||
name: axis_descriptions
|
||||
description: Two-element array describing the contents of the two response
|
||||
axis fields. Description should be something like ['altitude', 'azimuth']
|
||||
or '['radius', 'theta'].
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: axis_1_axis_2
|
||||
exact_cardinality: 2
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
focal_depth_image:
|
||||
name: focal_depth_image
|
||||
description: 'Gray-scale image taken with same settings/parameters (e.g.,
|
||||
focal depth, wavelength) as data collection. Array format: [rows][columns].'
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__focal_depth_image
|
||||
required: false
|
||||
multivalued: false
|
||||
sign_map:
|
||||
name: sign_map
|
||||
description: Sine of the angle between the direction of the gradient in axis_1
|
||||
and axis_2.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__sign_map
|
||||
required: false
|
||||
multivalued: false
|
||||
vasculature_image:
|
||||
name: vasculature_image
|
||||
description: 'Gray-scale anatomical image of cortical surface. Array structure:
|
||||
[rows][columns]'
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__vasculature_image
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ImagingRetinotopy__axis_1_phase_map:
|
||||
name: ImagingRetinotopy__axis_1_phase_map
|
||||
|
|
@ -99,7 +98,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(axis_1_phase_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: axis_1_phase_map
|
||||
|
|
@ -131,7 +129,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(axis_1_power_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: axis_1_power_map
|
||||
|
|
@ -162,7 +159,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(axis_2_phase_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: axis_2_phase_map
|
||||
|
|
@ -194,7 +190,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(axis_2_power_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: axis_2_power_map
|
||||
|
|
@ -226,7 +221,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(focal_depth_image)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: focal_depth_image
|
||||
|
|
@ -267,7 +261,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(sign_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: sign_map
|
||||
|
|
@ -295,7 +288,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(vasculature_image)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: vasculature_image
|
||||
|
|
|
|||
|
|
@ -21,7 +21,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -35,7 +34,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(timeseries)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
idx_start:
|
||||
|
|
@ -43,22 +41,22 @@ classes:
|
|||
description: Start index into the TimeSeries 'data' and 'timestamp' datasets
|
||||
of the referenced TimeSeries. The first dimension of those arrays is always
|
||||
time.
|
||||
multivalued: false
|
||||
range: int32
|
||||
required: true
|
||||
multivalued: false
|
||||
count:
|
||||
name: count
|
||||
description: Number of data samples available in this time series, during
|
||||
this epoch
|
||||
multivalued: false
|
||||
range: int32
|
||||
required: true
|
||||
multivalued: false
|
||||
timeseries:
|
||||
name: timeseries
|
||||
description: The TimeSeries that this index applies to
|
||||
multivalued: false
|
||||
range: TimeSeries
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
Image:
|
||||
name: Image
|
||||
|
|
@ -69,7 +67,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
resolution:
|
||||
|
|
@ -108,15 +105,8 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
image:
|
||||
name: image
|
||||
description: Ordered dataset of references to Image objects.
|
||||
multivalued: true
|
||||
range: Image
|
||||
required: true
|
||||
tree_root: true
|
||||
NWBContainer:
|
||||
name: NWBContainer
|
||||
|
|
@ -126,7 +116,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -138,7 +127,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -149,7 +137,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -168,49 +155,49 @@ classes:
|
|||
dimension should always represent time. This can also be used to store binary
|
||||
data (e.g., image frames). This can also be a link to data stored in an
|
||||
external file.
|
||||
multivalued: false
|
||||
range: TimeSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
starting_time:
|
||||
name: starting_time
|
||||
description: Timestamp of the first sample in seconds. When timestamps are
|
||||
uniformly spaced, the timestamp of the first sample can be specified and
|
||||
all subsequent ones calculated from the sampling rate attribute.
|
||||
multivalued: false
|
||||
range: TimeSeries__starting_time
|
||||
required: false
|
||||
multivalued: false
|
||||
timestamps:
|
||||
name: timestamps
|
||||
description: Timestamps for samples stored in data, in seconds, relative to
|
||||
the common experiment master-clock stored in NWBFile.timestamps_reference_time.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: float64
|
||||
required: false
|
||||
multivalued: false
|
||||
control:
|
||||
name: control
|
||||
description: Numerical labels that apply to each time point in data for the
|
||||
purpose of querying and slicing data by these values. If present, the length
|
||||
of this array should be the same size as the first dimension of data.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: uint8
|
||||
required: false
|
||||
multivalued: false
|
||||
control_description:
|
||||
name: control_description
|
||||
description: Description of each control value. Must be present if control
|
||||
is present. If present, control_description[0] should describe time points
|
||||
where control == 0.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_control_values
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
sync:
|
||||
name: sync
|
||||
description: Lab-specific time and sync information as provided directly from
|
||||
|
|
@ -219,9 +206,9 @@ classes:
|
|||
This group will usually only be populated in TimeSeries that are stored
|
||||
external to the NWB file, in files storing raw data. Once timestamp data
|
||||
is calculated, the contents of 'sync' are mostly for archival purposes.
|
||||
multivalued: false
|
||||
range: TimeSeries__sync
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
TimeSeries__data:
|
||||
name: TimeSeries__data
|
||||
|
|
@ -232,7 +219,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -312,7 +298,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(starting_time)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: starting_time
|
||||
|
|
@ -340,7 +325,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(sync)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: sync
|
||||
|
|
@ -368,7 +352,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(Images)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -378,30 +361,20 @@ classes:
|
|||
image:
|
||||
name: image
|
||||
description: Images stored in this collection.
|
||||
multivalued: true
|
||||
range: Image
|
||||
required: true
|
||||
multivalued: true
|
||||
order_of_images:
|
||||
name: order_of_images
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Ordered dataset of references to Image objects stored in the
|
||||
parent group. Each Image object in the Images group should be stored once
|
||||
and only once, so the dataset should have the same length as the number
|
||||
of images.
|
||||
multivalued: false
|
||||
range: Images__order_of_images
|
||||
range: ImageReferences
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
Images__order_of_images:
|
||||
name: Images__order_of_images
|
||||
description: Ordered dataset of references to Image objects stored in the parent
|
||||
group. Each Image object in the Images group should be stored once and only
|
||||
once, so the dataset should have the same length as the number of images.
|
||||
is_a: ImageReferences
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(order_of_images)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: order_of_images
|
||||
|
|
|
|||
|
|
@ -29,22 +29,21 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: 1-D or 2-D array storing position or direction relative to some
|
||||
reference frame.
|
||||
multivalued: false
|
||||
range: SpatialSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
reference_frame:
|
||||
name: reference_frame
|
||||
description: Description defining what exactly 'straight-ahead' means.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
SpatialSeries__data:
|
||||
name: SpatialSeries__data
|
||||
|
|
@ -54,7 +53,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
|
|||
|
|
@ -21,7 +21,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
|
|||
|
|
@ -25,7 +25,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
filtering:
|
||||
|
|
@ -41,9 +40,9 @@ classes:
|
|||
data:
|
||||
name: data
|
||||
description: Recorded voltage data.
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -59,11 +58,15 @@ classes:
|
|||
- alias: num_samples
|
||||
electrodes:
|
||||
name: electrodes
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: DynamicTableRegion pointer to the electrodes that this time series
|
||||
was generated from.
|
||||
multivalued: false
|
||||
range: ElectricalSeries__electrodes
|
||||
range: DynamicTableRegion
|
||||
required: true
|
||||
multivalued: false
|
||||
channel_conversion:
|
||||
name: channel_conversion
|
||||
description: Channel-specific conversion factor. Multiply the data in the
|
||||
|
|
@ -75,26 +78,13 @@ classes:
|
|||
as native values generated by data acquisition systems. If this dataset
|
||||
is not present, then there is no channel-specific conversion factor, i.e.
|
||||
it is 1 for all channels.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_channels
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ElectricalSeries__electrodes:
|
||||
name: ElectricalSeries__electrodes
|
||||
description: DynamicTableRegion pointer to the electrodes that this time series
|
||||
was generated from.
|
||||
is_a: DynamicTableRegion
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes
|
||||
SpikeEventSeries:
|
||||
name: SpikeEventSeries
|
||||
description: 'Stores snapshots/snippets of recorded spike events (i.e., threshold
|
||||
|
|
@ -109,15 +99,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Spike waveforms.
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -134,12 +123,12 @@ classes:
|
|||
the common experiment master-clock stored in NWBFile.timestamps_reference_time.
|
||||
Timestamps are required for the events. Unlike for TimeSeries, timestamps
|
||||
are required for SpikeEventSeries and are thus re-specified here.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: float64
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
FeatureExtraction:
|
||||
name: FeatureExtraction
|
||||
|
|
@ -150,23 +139,21 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(FeatureExtraction)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
name: description
|
||||
description: Description of features (eg, ''PC1'') for each of the extracted
|
||||
features.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_features
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
features:
|
||||
name: features
|
||||
description: Multi-dimensional array of features extracted from each event.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
|
|
@ -174,36 +161,28 @@ classes:
|
|||
- alias: num_features
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
times:
|
||||
name: times
|
||||
description: Times of events that features correspond to (can be a link).
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: float64
|
||||
required: true
|
||||
multivalued: false
|
||||
electrodes:
|
||||
name: electrodes
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: DynamicTableRegion pointer to the electrodes that this time series
|
||||
was generated from.
|
||||
range: DynamicTableRegion
|
||||
required: true
|
||||
multivalued: false
|
||||
range: FeatureExtraction__electrodes
|
||||
required: true
|
||||
tree_root: true
|
||||
FeatureExtraction__electrodes:
|
||||
name: FeatureExtraction__electrodes
|
||||
description: DynamicTableRegion pointer to the electrodes that this time series
|
||||
was generated from.
|
||||
is_a: DynamicTableRegion
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes
|
||||
EventDetection:
|
||||
name: EventDetection
|
||||
description: Detected spike events from voltage trace(s).
|
||||
|
|
@ -212,37 +191,36 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(EventDetection)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
detection_method:
|
||||
name: detection_method
|
||||
description: Description of how events were detected, such as voltage threshold,
|
||||
or dV/dT threshold, as well as relevant values.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
source_idx:
|
||||
name: source_idx
|
||||
description: Indices (zero-based) into source ElectricalSeries::data array
|
||||
corresponding to time of event. ''description'' should define what is meant
|
||||
by time of event (e.g., .25 ms before action potential peak, zero-crossing
|
||||
time, etc). The index points to each event from the raw data.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: int32
|
||||
required: true
|
||||
multivalued: false
|
||||
times:
|
||||
name: times
|
||||
description: Timestamps of events, in seconds.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: float64
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
EventWaveform:
|
||||
name: EventWaveform
|
||||
|
|
@ -304,7 +282,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -320,9 +297,9 @@ classes:
|
|||
position:
|
||||
name: position
|
||||
description: stereotaxic or common framework coordinates
|
||||
multivalued: false
|
||||
range: ElectrodeGroup__position
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ElectrodeGroup__position:
|
||||
name: ElectrodeGroup__position
|
||||
|
|
@ -331,28 +308,27 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(position)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: position
|
||||
x:
|
||||
name: x
|
||||
description: x coordinate
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
y:
|
||||
name: y
|
||||
description: y coordinate
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
z:
|
||||
name: z
|
||||
description: z coordinate
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
ClusterWaveforms:
|
||||
name: ClusterWaveforms
|
||||
description: DEPRECATED The mean waveform shape, including standard deviation,
|
||||
|
|
@ -366,39 +342,38 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(ClusterWaveforms)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
waveform_filtering:
|
||||
name: waveform_filtering
|
||||
description: Filtering applied to data before generating mean/sd
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
waveform_mean:
|
||||
name: waveform_mean
|
||||
description: The mean waveform for each cluster, using the same indices for
|
||||
each wave as cluster numbers in the associated Clustering module (i.e, cluster
|
||||
3 is in array slot [3]). Waveforms corresponding to gaps in cluster sequence
|
||||
should be empty (e.g., zero- filled)
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_clusters
|
||||
- alias: num_samples
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
waveform_sd:
|
||||
name: waveform_sd
|
||||
description: Stdev of waveforms for each cluster, using the same indices as
|
||||
in mean
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_clusters
|
||||
- alias: num_samples
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
Clustering:
|
||||
name: Clustering
|
||||
|
|
@ -409,43 +384,42 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(Clustering)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
name: description
|
||||
description: Description of clusters or clustering, (e.g. cluster 0 is noise,
|
||||
clusters curated using Klusters, etc)
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
num:
|
||||
name: num
|
||||
description: Cluster number of each event
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: int32
|
||||
required: true
|
||||
multivalued: false
|
||||
peak_over_rms:
|
||||
name: peak_over_rms
|
||||
description: Maximum ratio of waveform peak to RMS on any channel in the cluster
|
||||
(provides a basic clustering metric).
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_clusters
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
times:
|
||||
name: times
|
||||
description: Times of clustered events, in seconds. This may be a link to
|
||||
times field in associated FeatureExtraction module.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: float64
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -22,76 +22,63 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
start_time:
|
||||
name: start_time
|
||||
description: Start time of epoch, in seconds.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
stop_time:
|
||||
name: stop_time
|
||||
description: Stop time of epoch, in seconds.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
tags:
|
||||
name: tags
|
||||
description: User-defined tags that identify or categorize events.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tags_index:
|
||||
name: tags_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index for tags.
|
||||
multivalued: false
|
||||
range: TimeIntervals__tags_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
timeseries:
|
||||
name: timeseries
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: An index into a TimeSeries object.
|
||||
multivalued: false
|
||||
range: TimeIntervals__timeseries
|
||||
range: TimeSeriesReferenceVectorData
|
||||
required: false
|
||||
multivalued: false
|
||||
timeseries_index:
|
||||
name: timeseries_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index for timeseries.
|
||||
multivalued: false
|
||||
range: TimeIntervals__timeseries_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
TimeIntervals__tags_index:
|
||||
name: TimeIntervals__tags_index
|
||||
description: Index for tags.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(tags_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: tags_index
|
||||
TimeIntervals__timeseries:
|
||||
name: TimeIntervals__timeseries
|
||||
description: An index into a TimeSeries object.
|
||||
is_a: TimeSeriesReferenceVectorData
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(timeseries)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: timeseries
|
||||
TimeIntervals__timeseries_index:
|
||||
name: TimeIntervals__timeseries_index
|
||||
description: Index for timeseries.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(timeseries_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: timeseries_index
|
||||
|
|
|
|||
|
|
@ -28,7 +28,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
notes:
|
||||
|
|
@ -45,7 +44,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(root)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: root
|
||||
|
|
@ -63,36 +61,36 @@ classes:
|
|||
The file can be created after the experiment was run, so this may differ
|
||||
from the experiment start time. Each modification to the nwb file adds a
|
||||
new entry to the array.'
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_modifications
|
||||
range: isodatetime
|
||||
required: true
|
||||
multivalued: false
|
||||
identifier:
|
||||
name: identifier
|
||||
description: A unique text identifier for the file. For example, concatenated
|
||||
lab name, file creation date/time and experimentalist, or a hash of these
|
||||
and/or other values. The goal is that the string should be unique to all
|
||||
other files.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
session_description:
|
||||
name: session_description
|
||||
description: A description of the experimental session and data in the file.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
session_start_time:
|
||||
name: session_start_time
|
||||
description: 'Date and time of the experiment/session start. The date is stored
|
||||
in UTC with local timezone offset as ISO 8601 extended formatted string:
|
||||
2018-09-28T14:43:54.123+02:00. Dates stored in UTC end in "Z" with no timezone
|
||||
offset. Date accuracy is up to milliseconds.'
|
||||
multivalued: false
|
||||
range: isodatetime
|
||||
required: true
|
||||
multivalued: false
|
||||
timestamps_reference_time:
|
||||
name: timestamps_reference_time
|
||||
description: 'Date and time corresponding to time zero of all timestamps.
|
||||
|
|
@ -100,9 +98,9 @@ classes:
|
|||
formatted string: 2018-09-28T14:43:54.123+02:00. Dates stored in UTC end
|
||||
in "Z" with no timezone offset. Date accuracy is up to milliseconds. All
|
||||
times stored in the file use this time as reference (i.e., time zero).'
|
||||
multivalued: false
|
||||
range: isodatetime
|
||||
required: true
|
||||
multivalued: false
|
||||
acquisition:
|
||||
name: acquisition
|
||||
description: Data streams recorded from the system, including ephys, ophys,
|
||||
|
|
@ -179,9 +177,9 @@ classes:
|
|||
an experiment. The stimulus group is organized so that one version of template
|
||||
stimuli can be stored and these be used multiple times. These templates
|
||||
can exist in the present file or can be linked to a remote library file.
|
||||
multivalued: false
|
||||
range: NWBFile__stimulus
|
||||
required: true
|
||||
multivalued: false
|
||||
general:
|
||||
name: general
|
||||
description: Experimental metadata, including protocol, notes and description
|
||||
|
|
@ -199,9 +197,9 @@ classes:
|
|||
datasets. All entries in the below table are to be included when data is
|
||||
present. Unused groups (e.g., intracellular_ephys in an optophysiology experiment)
|
||||
should not be created unless there is data to store within them.
|
||||
multivalued: false
|
||||
range: NWBFile__general
|
||||
required: true
|
||||
multivalued: false
|
||||
intervals:
|
||||
name: intervals
|
||||
description: Experimental intervals, whether that be logically distinct sub-experiments
|
||||
|
|
@ -219,9 +217,9 @@ classes:
|
|||
units:
|
||||
name: units
|
||||
description: Data about sorted spike units.
|
||||
multivalued: false
|
||||
range: Units
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
NWBFile__stimulus:
|
||||
name: NWBFile__stimulus
|
||||
|
|
@ -241,7 +239,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(stimulus)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: stimulus
|
||||
|
|
@ -285,129 +282,128 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(general)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: general
|
||||
data_collection:
|
||||
name: data_collection
|
||||
description: Notes about data collection and analysis.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
experiment_description:
|
||||
name: experiment_description
|
||||
description: General description of the experiment.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
experimenter:
|
||||
name: experimenter
|
||||
description: Name of person(s) who performed the experiment. Can also specify
|
||||
roles of different people involved.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_experimenters
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
institution:
|
||||
name: institution
|
||||
description: Institution(s) where experiment was performed.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
keywords:
|
||||
name: keywords
|
||||
description: Terms to search over.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_keywords
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
lab:
|
||||
name: lab
|
||||
description: Laboratory where experiment was performed.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
notes:
|
||||
name: notes
|
||||
description: Notes about the experiment.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
pharmacology:
|
||||
name: pharmacology
|
||||
description: Description of drugs used, including how and when they were administered.
|
||||
Anesthesia(s), painkiller(s), etc., plus dosage, concentration, etc.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
protocol:
|
||||
name: protocol
|
||||
description: Experimental protocol, if applicable. e.g., include IACUC protocol
|
||||
number.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
related_publications:
|
||||
name: related_publications
|
||||
description: Publication information. PMID, DOI, URL, etc.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_publications
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
session_id:
|
||||
name: session_id
|
||||
description: Lab-specific ID for the session.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
slices:
|
||||
name: slices
|
||||
description: Description of slices, including information about preparation
|
||||
thickness, orientation, temperature, and bath solution.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
source_script:
|
||||
name: source_script
|
||||
description: Script file or link to public source code used to create this
|
||||
NWB file.
|
||||
multivalued: false
|
||||
range: NWBFile__general__source_script
|
||||
required: false
|
||||
multivalued: false
|
||||
stimulus:
|
||||
name: stimulus
|
||||
description: Notes about stimuli, such as how and where they were presented.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
surgery:
|
||||
name: surgery
|
||||
description: Narrative description about surgery/surgeries, including date(s)
|
||||
and who performed surgery.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
virus:
|
||||
name: virus
|
||||
description: Information about virus(es) used in experiments, including virus
|
||||
ID, source, date made, injection location, volume, etc.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
lab_meta_data:
|
||||
name: lab_meta_data
|
||||
description: Place-holder than can be extended so that lab-specific meta-data
|
||||
can be placed in /general.
|
||||
multivalued: true
|
||||
range: LabMetaData
|
||||
required: false
|
||||
multivalued: true
|
||||
devices:
|
||||
name: devices
|
||||
description: Description of hardware devices used during experiment, e.g.,
|
||||
|
|
@ -421,21 +417,21 @@ classes:
|
|||
name: subject
|
||||
description: Information about the animal or person from which the data was
|
||||
measured.
|
||||
multivalued: false
|
||||
range: Subject
|
||||
required: false
|
||||
multivalued: false
|
||||
extracellular_ephys:
|
||||
name: extracellular_ephys
|
||||
description: Metadata related to extracellular electrophysiology.
|
||||
multivalued: false
|
||||
range: NWBFile__general__extracellular_ephys
|
||||
required: false
|
||||
multivalued: false
|
||||
intracellular_ephys:
|
||||
name: intracellular_ephys
|
||||
description: Metadata related to intracellular electrophysiology.
|
||||
multivalued: false
|
||||
range: NWBFile__general__intracellular_ephys
|
||||
required: false
|
||||
multivalued: false
|
||||
optogenetics:
|
||||
name: optogenetics
|
||||
description: Metadata describing optogenetic stimuluation.
|
||||
|
|
@ -460,7 +456,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(source_script)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: source_script
|
||||
|
|
@ -479,22 +474,21 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(extracellular_ephys)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: extracellular_ephys
|
||||
electrode_group:
|
||||
name: electrode_group
|
||||
description: Physical group of electrodes.
|
||||
multivalued: true
|
||||
range: ElectrodeGroup
|
||||
required: false
|
||||
multivalued: true
|
||||
electrodes:
|
||||
name: electrodes
|
||||
description: A table of all electrodes (i.e. channels) used for recording.
|
||||
multivalued: false
|
||||
range: NWBFile__general__extracellular_ephys__electrodes
|
||||
required: false
|
||||
multivalued: false
|
||||
NWBFile__general__extracellular_ephys__electrodes:
|
||||
name: NWBFile__general__extracellular_ephys__electrodes
|
||||
description: A table of all electrodes (i.e. channels) used for recording.
|
||||
|
|
@ -503,75 +497,119 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes
|
||||
x:
|
||||
name: x
|
||||
description: x coordinate of the channel location in the brain (+x is posterior).
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
y:
|
||||
name: y
|
||||
description: y coordinate of the channel location in the brain (+y is inferior).
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
z:
|
||||
name: z
|
||||
description: z coordinate of the channel location in the brain (+z is right).
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
imp:
|
||||
name: imp
|
||||
description: Impedance of the channel, in ohms.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
location:
|
||||
name: location
|
||||
description: Location of the electrode (channel). Specify the area, layer,
|
||||
comments on estimation of area/layer, stereotaxic coordinates if in vivo,
|
||||
etc. Use standard atlas names for anatomical regions when possible.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
filtering:
|
||||
name: filtering
|
||||
description: Description of hardware filtering, including the filter name
|
||||
and frequency cutoffs.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
group:
|
||||
name: group
|
||||
description: Reference to the ElectrodeGroup this electrode is a part of.
|
||||
multivalued: true
|
||||
range: ElectrodeGroup
|
||||
required: true
|
||||
multivalued: true
|
||||
group_name:
|
||||
name: group_name
|
||||
description: Name of the ElectrodeGroup this electrode is a part of.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
rel_x:
|
||||
name: rel_x
|
||||
description: x coordinate in electrode group
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
rel_y:
|
||||
name: rel_y
|
||||
description: y coordinate in electrode group
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
rel_z:
|
||||
name: rel_z
|
||||
description: z coordinate in electrode group
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
reference:
|
||||
name: reference
|
||||
description: Description of the reference electrode and/or reference scheme
|
||||
used for this electrode, e.g., "stainless steel skull screw" or "online
|
||||
common average referencing".
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
NWBFile__general__intracellular_ephys:
|
||||
name: NWBFile__general__intracellular_ephys
|
||||
description: Metadata related to intracellular electrophysiology.
|
||||
|
|
@ -579,7 +617,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(intracellular_ephys)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: intracellular_ephys
|
||||
|
|
@ -589,24 +626,24 @@ classes:
|
|||
of filtering used. Includes filtering type and parameters, frequency fall-off,
|
||||
etc. If this changes between TimeSeries, filter description should be stored
|
||||
as a text attribute for each TimeSeries.'
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
intracellular_electrode:
|
||||
name: intracellular_electrode
|
||||
description: An intracellular electrode.
|
||||
multivalued: true
|
||||
range: IntracellularElectrode
|
||||
required: false
|
||||
multivalued: true
|
||||
sweep_table:
|
||||
name: sweep_table
|
||||
description: '[DEPRECATED] Table used to group different PatchClampSeries.
|
||||
SweepTable is being replaced by IntracellularRecordingsTable and SimultaneousRecordingsTable
|
||||
tabels. Additional SequentialRecordingsTable, RepetitionsTable and ExperimentalConditions
|
||||
tables provide enhanced support for experiment metadata.'
|
||||
multivalued: false
|
||||
range: SweepTable
|
||||
required: false
|
||||
multivalued: false
|
||||
intracellular_recordings:
|
||||
name: intracellular_recordings
|
||||
description: A table to group together a stimulus and response from a single
|
||||
|
|
@ -621,42 +658,42 @@ classes:
|
|||
PatchClampSeries. However, the use of AD/DA channels that are not associated
|
||||
to an electrode is also common in intracellular electrophysiology, in which
|
||||
case other TimeSeries may be used.
|
||||
multivalued: false
|
||||
range: IntracellularRecordingsTable
|
||||
required: false
|
||||
multivalued: false
|
||||
simultaneous_recordings:
|
||||
name: simultaneous_recordings
|
||||
description: A table for grouping different intracellular recordings from
|
||||
the IntracellularRecordingsTable table together that were recorded simultaneously
|
||||
from different electrodes
|
||||
multivalued: false
|
||||
range: SimultaneousRecordingsTable
|
||||
required: false
|
||||
multivalued: false
|
||||
sequential_recordings:
|
||||
name: sequential_recordings
|
||||
description: A table for grouping different sequential recordings from the
|
||||
SimultaneousRecordingsTable table together. This is typically used to group
|
||||
together sequential recordings where the a sequence of stimuli of the same
|
||||
type with varying parameters have been presented in a sequence.
|
||||
multivalued: false
|
||||
range: SequentialRecordingsTable
|
||||
required: false
|
||||
multivalued: false
|
||||
repetitions:
|
||||
name: repetitions
|
||||
description: A table for grouping different sequential intracellular recordings
|
||||
together. With each SequentialRecording typically representing a particular
|
||||
type of stimulus, the RepetitionsTable table is typically used to group
|
||||
sets of stimuli applied in sequence.
|
||||
multivalued: false
|
||||
range: RepetitionsTable
|
||||
required: false
|
||||
multivalued: false
|
||||
experimental_conditions:
|
||||
name: experimental_conditions
|
||||
description: A table for grouping different intracellular recording repetitions
|
||||
together that belong to the same experimental experimental_conditions.
|
||||
multivalued: false
|
||||
range: ExperimentalConditionsTable
|
||||
required: false
|
||||
multivalued: false
|
||||
LabMetaData:
|
||||
name: LabMetaData
|
||||
description: Lab-specific meta-data.
|
||||
|
|
@ -664,7 +701,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -675,63 +711,62 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
age:
|
||||
name: age
|
||||
description: Age of subject. Can be supplied instead of 'date_of_birth'.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
date_of_birth:
|
||||
name: date_of_birth
|
||||
description: Date of birth of subject. Can be supplied instead of 'age'.
|
||||
multivalued: false
|
||||
range: isodatetime
|
||||
required: false
|
||||
multivalued: false
|
||||
description:
|
||||
name: description
|
||||
description: Description of subject and where subject came from (e.g., breeder,
|
||||
if animal).
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
genotype:
|
||||
name: genotype
|
||||
description: Genetic strain. If absent, assume Wild Type (WT).
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
sex:
|
||||
name: sex
|
||||
description: Gender of subject.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
species:
|
||||
name: species
|
||||
description: Species of subject.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
strain:
|
||||
name: strain
|
||||
description: Strain of subject.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
subject_id:
|
||||
name: subject_id
|
||||
description: ID of animal/person used/participating in experiment (lab convention).
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
weight:
|
||||
name: weight
|
||||
description: Weight at time of experiment, at time of surgery and at other
|
||||
important times.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -23,7 +23,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
stimulus_description:
|
||||
|
|
@ -37,16 +36,16 @@ classes:
|
|||
data:
|
||||
name: data
|
||||
description: Recorded voltage or current.
|
||||
multivalued: false
|
||||
range: PatchClampSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
gain:
|
||||
name: gain
|
||||
description: Gain of the recording, in units Volt/Amp (v-clamp) or Volt/Volt
|
||||
(c-clamp).
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
PatchClampSeries__data:
|
||||
name: PatchClampSeries__data
|
||||
|
|
@ -55,7 +54,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -80,33 +78,32 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Recorded voltage.
|
||||
multivalued: false
|
||||
range: CurrentClampSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
bias_current:
|
||||
name: bias_current
|
||||
description: Bias current, in amps.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
bridge_balance:
|
||||
name: bridge_balance
|
||||
description: Bridge balance, in ohms.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
capacitance_compensation:
|
||||
name: capacitance_compensation
|
||||
description: Capacitance compensation, in farads.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
CurrentClampSeries__data:
|
||||
name: CurrentClampSeries__data
|
||||
|
|
@ -115,7 +112,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -140,7 +136,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
stimulus_description:
|
||||
|
|
@ -151,21 +146,21 @@ classes:
|
|||
bias_current:
|
||||
name: bias_current
|
||||
description: Bias current, in amps, fixed to 0.0.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
bridge_balance:
|
||||
name: bridge_balance
|
||||
description: Bridge balance, in ohms, fixed to 0.0.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
capacitance_compensation:
|
||||
name: capacitance_compensation
|
||||
description: Capacitance compensation, in farads, fixed to 0.0.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
CurrentClampStimulusSeries:
|
||||
name: CurrentClampStimulusSeries
|
||||
|
|
@ -174,15 +169,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Stimulus current applied.
|
||||
multivalued: false
|
||||
range: CurrentClampStimulusSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
CurrentClampStimulusSeries__data:
|
||||
name: CurrentClampStimulusSeries__data
|
||||
|
|
@ -191,7 +185,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -215,57 +208,56 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Recorded current.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
capacitance_fast:
|
||||
name: capacitance_fast
|
||||
description: Fast capacitance, in farads.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__capacitance_fast
|
||||
required: false
|
||||
multivalued: false
|
||||
capacitance_slow:
|
||||
name: capacitance_slow
|
||||
description: Slow capacitance, in farads.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__capacitance_slow
|
||||
required: false
|
||||
multivalued: false
|
||||
resistance_comp_bandwidth:
|
||||
name: resistance_comp_bandwidth
|
||||
description: Resistance compensation bandwidth, in hertz.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__resistance_comp_bandwidth
|
||||
required: false
|
||||
multivalued: false
|
||||
resistance_comp_correction:
|
||||
name: resistance_comp_correction
|
||||
description: Resistance compensation correction, in percent.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__resistance_comp_correction
|
||||
required: false
|
||||
multivalued: false
|
||||
resistance_comp_prediction:
|
||||
name: resistance_comp_prediction
|
||||
description: Resistance compensation prediction, in percent.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__resistance_comp_prediction
|
||||
required: false
|
||||
multivalued: false
|
||||
whole_cell_capacitance_comp:
|
||||
name: whole_cell_capacitance_comp
|
||||
description: Whole cell capacitance compensation, in farads.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__whole_cell_capacitance_comp
|
||||
required: false
|
||||
multivalued: false
|
||||
whole_cell_series_resistance_comp:
|
||||
name: whole_cell_series_resistance_comp
|
||||
description: Whole cell series resistance compensation, in ohms.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__whole_cell_series_resistance_comp
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
VoltageClampSeries__data:
|
||||
name: VoltageClampSeries__data
|
||||
|
|
@ -274,7 +266,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -296,7 +287,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(capacitance_fast)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: capacitance_fast
|
||||
|
|
@ -315,7 +305,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(capacitance_slow)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: capacitance_slow
|
||||
|
|
@ -334,7 +323,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(resistance_comp_bandwidth)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: resistance_comp_bandwidth
|
||||
|
|
@ -354,7 +342,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(resistance_comp_correction)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: resistance_comp_correction
|
||||
|
|
@ -374,7 +361,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(resistance_comp_prediction)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: resistance_comp_prediction
|
||||
|
|
@ -394,7 +380,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(whole_cell_capacitance_comp)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: whole_cell_capacitance_comp
|
||||
|
|
@ -414,7 +399,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(whole_cell_series_resistance_comp)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: whole_cell_series_resistance_comp
|
||||
|
|
@ -434,15 +418,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Stimulus voltage applied.
|
||||
multivalued: false
|
||||
range: VoltageClampStimulusSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
VoltageClampStimulusSeries__data:
|
||||
name: VoltageClampStimulusSeries__data
|
||||
|
|
@ -451,7 +434,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -473,59 +455,58 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
cell_id:
|
||||
name: cell_id
|
||||
description: unique ID of the cell
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
description:
|
||||
name: description
|
||||
description: Description of electrode (e.g., whole-cell, sharp, etc.).
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
filtering:
|
||||
name: filtering
|
||||
description: Electrode specific filtering.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
initial_access_resistance:
|
||||
name: initial_access_resistance
|
||||
description: Initial access resistance.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
location:
|
||||
name: location
|
||||
description: Location of the electrode. Specify the area, layer, comments
|
||||
on estimation of area/layer, stereotaxic coordinates if in vivo, etc. Use
|
||||
standard atlas names for anatomical regions when possible.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
resistance:
|
||||
name: resistance
|
||||
description: Electrode resistance, in ohms.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
seal:
|
||||
name: seal
|
||||
description: Information about seal used for recording.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
slice:
|
||||
name: slice
|
||||
description: Information about slice used for recording.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
SweepTable:
|
||||
name: SweepTable
|
||||
|
|
@ -537,38 +518,34 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
sweep_number:
|
||||
name: sweep_number
|
||||
description: Sweep number of the PatchClampSeries in that row.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: uint32
|
||||
required: true
|
||||
multivalued: false
|
||||
series:
|
||||
name: series
|
||||
description: The PatchClampSeries with the sweep number in that row.
|
||||
multivalued: true
|
||||
range: PatchClampSeries
|
||||
required: true
|
||||
multivalued: true
|
||||
series_index:
|
||||
name: series_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index for series.
|
||||
range: VectorIndex
|
||||
required: true
|
||||
multivalued: false
|
||||
range: SweepTable__series_index
|
||||
required: true
|
||||
tree_root: true
|
||||
SweepTable__series_index:
|
||||
name: SweepTable__series_index
|
||||
description: Index for series.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(series_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: series_index
|
||||
IntracellularElectrodesTable:
|
||||
name: IntracellularElectrodesTable
|
||||
description: Table for storing intracellular electrode related metadata.
|
||||
|
|
@ -576,7 +553,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -586,8 +562,9 @@ classes:
|
|||
electrode:
|
||||
name: electrode
|
||||
description: Column for storing the reference to the intracellular electrode.
|
||||
multivalued: true
|
||||
range: IntracellularElectrode
|
||||
required: true
|
||||
multivalued: true
|
||||
tree_root: true
|
||||
IntracellularStimuliTable:
|
||||
name: IntracellularStimuliTable
|
||||
|
|
@ -596,7 +573,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -605,25 +581,16 @@ classes:
|
|||
range: text
|
||||
stimulus:
|
||||
name: stimulus
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Column storing the reference to the recorded stimulus for the
|
||||
recording (rows).
|
||||
range: TimeSeriesReferenceVectorData
|
||||
required: true
|
||||
multivalued: false
|
||||
range: IntracellularStimuliTable__stimulus
|
||||
required: true
|
||||
tree_root: true
|
||||
IntracellularStimuliTable__stimulus:
|
||||
name: IntracellularStimuliTable__stimulus
|
||||
description: Column storing the reference to the recorded stimulus for the recording
|
||||
(rows).
|
||||
is_a: TimeSeriesReferenceVectorData
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(stimulus)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: stimulus
|
||||
IntracellularResponsesTable:
|
||||
name: IntracellularResponsesTable
|
||||
description: Table for storing intracellular response related metadata.
|
||||
|
|
@ -631,7 +598,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -640,25 +606,16 @@ classes:
|
|||
range: text
|
||||
response:
|
||||
name: response
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Column storing the reference to the recorded response for the
|
||||
recording (rows)
|
||||
range: TimeSeriesReferenceVectorData
|
||||
required: true
|
||||
multivalued: false
|
||||
range: IntracellularResponsesTable__response
|
||||
required: true
|
||||
tree_root: true
|
||||
IntracellularResponsesTable__response:
|
||||
name: IntracellularResponsesTable__response
|
||||
description: Column storing the reference to the recorded response for the recording
|
||||
(rows)
|
||||
is_a: TimeSeriesReferenceVectorData
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(response)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: response
|
||||
IntracellularRecordingsTable:
|
||||
name: IntracellularRecordingsTable
|
||||
description: A table to group together a stimulus and response from a single electrode
|
||||
|
|
@ -677,7 +634,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(intracellular_recordings)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: intracellular_recordings
|
||||
|
|
@ -689,21 +645,21 @@ classes:
|
|||
electrodes:
|
||||
name: electrodes
|
||||
description: Table for storing intracellular electrode related metadata.
|
||||
multivalued: false
|
||||
range: IntracellularElectrodesTable
|
||||
required: true
|
||||
multivalued: false
|
||||
stimuli:
|
||||
name: stimuli
|
||||
description: Table for storing intracellular stimulus related metadata.
|
||||
multivalued: false
|
||||
range: IntracellularStimuliTable
|
||||
required: true
|
||||
multivalued: false
|
||||
responses:
|
||||
name: responses
|
||||
description: Table for storing intracellular response related metadata.
|
||||
multivalued: false
|
||||
range: IntracellularResponsesTable
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
SimultaneousRecordingsTable:
|
||||
name: SimultaneousRecordingsTable
|
||||
|
|
@ -715,7 +671,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(simultaneous_recordings)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: simultaneous_recordings
|
||||
|
|
@ -723,15 +678,19 @@ classes:
|
|||
name: recordings
|
||||
description: A reference to one or more rows in the IntracellularRecordingsTable
|
||||
table.
|
||||
multivalued: false
|
||||
range: SimultaneousRecordingsTable__recordings
|
||||
required: true
|
||||
multivalued: false
|
||||
recordings_index:
|
||||
name: recordings_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index dataset for the recordings column.
|
||||
multivalued: false
|
||||
range: SimultaneousRecordingsTable__recordings_index
|
||||
range: VectorIndex
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
SimultaneousRecordingsTable__recordings:
|
||||
name: SimultaneousRecordingsTable__recordings
|
||||
|
|
@ -742,7 +701,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(recordings)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: recordings
|
||||
|
|
@ -752,18 +710,6 @@ classes:
|
|||
table region applies to. This specializes the attribute inherited from DynamicTableRegion
|
||||
to fix the type of table that can be referenced here.
|
||||
range: IntracellularRecordingsTable
|
||||
SimultaneousRecordingsTable__recordings_index:
|
||||
name: SimultaneousRecordingsTable__recordings_index
|
||||
description: Index dataset for the recordings column.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(recordings_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: recordings_index
|
||||
SequentialRecordingsTable:
|
||||
name: SequentialRecordingsTable
|
||||
description: A table for grouping different sequential recordings from the SimultaneousRecordingsTable
|
||||
|
|
@ -775,7 +721,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(sequential_recordings)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: sequential_recordings
|
||||
|
|
@ -783,20 +728,28 @@ classes:
|
|||
name: simultaneous_recordings
|
||||
description: A reference to one or more rows in the SimultaneousRecordingsTable
|
||||
table.
|
||||
multivalued: false
|
||||
range: SequentialRecordingsTable__simultaneous_recordings
|
||||
required: true
|
||||
multivalued: false
|
||||
simultaneous_recordings_index:
|
||||
name: simultaneous_recordings_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index dataset for the simultaneous_recordings column.
|
||||
multivalued: false
|
||||
range: SequentialRecordingsTable__simultaneous_recordings_index
|
||||
range: VectorIndex
|
||||
required: true
|
||||
multivalued: false
|
||||
stimulus_type:
|
||||
name: stimulus_type
|
||||
description: The type of stimulus used for the sequential recording.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
SequentialRecordingsTable__simultaneous_recordings:
|
||||
name: SequentialRecordingsTable__simultaneous_recordings
|
||||
|
|
@ -807,7 +760,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(simultaneous_recordings)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: simultaneous_recordings
|
||||
|
|
@ -817,18 +769,6 @@ classes:
|
|||
table region applies to. This specializes the attribute inherited from DynamicTableRegion
|
||||
to fix the type of table that can be referenced here.
|
||||
range: SimultaneousRecordingsTable
|
||||
SequentialRecordingsTable__simultaneous_recordings_index:
|
||||
name: SequentialRecordingsTable__simultaneous_recordings_index
|
||||
description: Index dataset for the simultaneous_recordings column.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(simultaneous_recordings_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: simultaneous_recordings_index
|
||||
RepetitionsTable:
|
||||
name: RepetitionsTable
|
||||
description: A table for grouping different sequential intracellular recordings
|
||||
|
|
@ -840,7 +780,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(repetitions)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: repetitions
|
||||
|
|
@ -848,15 +787,19 @@ classes:
|
|||
name: sequential_recordings
|
||||
description: A reference to one or more rows in the SequentialRecordingsTable
|
||||
table.
|
||||
multivalued: false
|
||||
range: RepetitionsTable__sequential_recordings
|
||||
required: true
|
||||
multivalued: false
|
||||
sequential_recordings_index:
|
||||
name: sequential_recordings_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index dataset for the sequential_recordings column.
|
||||
multivalued: false
|
||||
range: RepetitionsTable__sequential_recordings_index
|
||||
range: VectorIndex
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
RepetitionsTable__sequential_recordings:
|
||||
name: RepetitionsTable__sequential_recordings
|
||||
|
|
@ -867,7 +810,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(sequential_recordings)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: sequential_recordings
|
||||
|
|
@ -877,18 +819,6 @@ classes:
|
|||
region applies to. This specializes the attribute inherited from DynamicTableRegion
|
||||
to fix the type of table that can be referenced here.
|
||||
range: SequentialRecordingsTable
|
||||
RepetitionsTable__sequential_recordings_index:
|
||||
name: RepetitionsTable__sequential_recordings_index
|
||||
description: Index dataset for the sequential_recordings column.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(sequential_recordings_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: sequential_recordings_index
|
||||
ExperimentalConditionsTable:
|
||||
name: ExperimentalConditionsTable
|
||||
description: A table for grouping different intracellular recording repetitions
|
||||
|
|
@ -898,22 +828,25 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(experimental_conditions)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: experimental_conditions
|
||||
repetitions:
|
||||
name: repetitions
|
||||
description: A reference to one or more rows in the RepetitionsTable table.
|
||||
multivalued: false
|
||||
range: ExperimentalConditionsTable__repetitions
|
||||
required: true
|
||||
multivalued: false
|
||||
repetitions_index:
|
||||
name: repetitions_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index dataset for the repetitions column.
|
||||
multivalued: false
|
||||
range: ExperimentalConditionsTable__repetitions_index
|
||||
range: VectorIndex
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ExperimentalConditionsTable__repetitions:
|
||||
name: ExperimentalConditionsTable__repetitions
|
||||
|
|
@ -923,7 +856,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(repetitions)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: repetitions
|
||||
|
|
@ -933,15 +865,3 @@ classes:
|
|||
applies to. This specializes the attribute inherited from DynamicTableRegion
|
||||
to fix the type of table that can be referenced here.
|
||||
range: RepetitionsTable
|
||||
ExperimentalConditionsTable__repetitions_index:
|
||||
name: ExperimentalConditionsTable__repetitions_index
|
||||
description: Index dataset for the repetitions column.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(repetitions_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: repetitions_index
|
||||
|
|
|
|||
|
|
@ -21,7 +21,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -32,7 +31,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -43,7 +41,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -59,16 +56,15 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Binary data representing images across frames. If data are stored
|
||||
in an external file, this should be an empty 3D array.
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -84,12 +80,12 @@ classes:
|
|||
dimension:
|
||||
name: dimension
|
||||
description: Number of pixels on x, y, (and z) axes.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: rank
|
||||
range: int32
|
||||
required: false
|
||||
multivalued: false
|
||||
external_file:
|
||||
name: external_file
|
||||
description: Paths to one or more external file(s). The field is only present
|
||||
|
|
@ -97,18 +93,18 @@ classes:
|
|||
in the file system as one or more image file(s). This field should NOT be
|
||||
used if the image is stored in another NWB file and that file is linked
|
||||
to this file.
|
||||
multivalued: false
|
||||
range: ImageSeries__external_file
|
||||
required: false
|
||||
multivalued: false
|
||||
format:
|
||||
name: format
|
||||
description: Format of image. If this is 'external', then the attribute 'external_file'
|
||||
contains the path information to the image files. If this is 'raw', then
|
||||
the raw (single-channel) binary data is stored in the 'data' dataset. If
|
||||
this attribute is not present, then the default format='raw' case is assumed.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ImageSeries__external_file:
|
||||
name: ImageSeries__external_file
|
||||
|
|
@ -120,7 +116,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(external_file)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: external_file
|
||||
|
|
@ -156,7 +151,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -171,21 +165,20 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
distance:
|
||||
name: distance
|
||||
description: Distance from camera/monitor to target/eye.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
field_of_view:
|
||||
name: field_of_view
|
||||
description: Width, height and depth of image, or imaged area, in meters.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -198,9 +191,9 @@ classes:
|
|||
data:
|
||||
name: data
|
||||
description: Images presented to subject, either grayscale or RGB
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -218,9 +211,9 @@ classes:
|
|||
name: orientation
|
||||
description: Description of image relative to some reference frame (e.g.,
|
||||
which way is up). Must also specify frame of reference.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
IndexSeries:
|
||||
name: IndexSeries
|
||||
|
|
@ -235,17 +228,16 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Index of the image (using zero-indexing) in the linked Images
|
||||
object.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: uint32
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -19,53 +19,67 @@ types:
|
|||
float32:
|
||||
name: float32
|
||||
typeof: float
|
||||
repr: np.float32
|
||||
float64:
|
||||
name: float64
|
||||
typeof: double
|
||||
repr: np.float64
|
||||
long:
|
||||
name: long
|
||||
typeof: integer
|
||||
repr: np.longlong
|
||||
int64:
|
||||
name: int64
|
||||
typeof: integer
|
||||
repr: np.int64
|
||||
int:
|
||||
name: int
|
||||
typeof: integer
|
||||
int32:
|
||||
name: int32
|
||||
typeof: integer
|
||||
repr: np.int32
|
||||
int16:
|
||||
name: int16
|
||||
typeof: integer
|
||||
repr: np.int16
|
||||
short:
|
||||
name: short
|
||||
typeof: integer
|
||||
repr: np.int16
|
||||
int8:
|
||||
name: int8
|
||||
typeof: integer
|
||||
repr: np.int8
|
||||
uint:
|
||||
name: uint
|
||||
typeof: integer
|
||||
repr: np.uint64
|
||||
minimum_value: 0
|
||||
uint32:
|
||||
name: uint32
|
||||
typeof: integer
|
||||
repr: np.uint32
|
||||
minimum_value: 0
|
||||
uint16:
|
||||
name: uint16
|
||||
typeof: integer
|
||||
repr: np.uint16
|
||||
minimum_value: 0
|
||||
uint8:
|
||||
name: uint8
|
||||
typeof: integer
|
||||
repr: np.uint8
|
||||
minimum_value: 0
|
||||
uint64:
|
||||
name: uint64
|
||||
typeof: integer
|
||||
repr: np.uint64
|
||||
minimum_value: 0
|
||||
numeric:
|
||||
name: numeric
|
||||
typeof: float
|
||||
repr: np.number
|
||||
text:
|
||||
name: text
|
||||
typeof: string
|
||||
|
|
@ -87,58 +101,7 @@ types:
|
|||
isodatetime:
|
||||
name: isodatetime
|
||||
typeof: datetime
|
||||
enums:
|
||||
FlatDType:
|
||||
name: FlatDType
|
||||
permissible_values:
|
||||
float:
|
||||
text: float
|
||||
float32:
|
||||
text: float32
|
||||
double:
|
||||
text: double
|
||||
float64:
|
||||
text: float64
|
||||
long:
|
||||
text: long
|
||||
int64:
|
||||
text: int64
|
||||
int:
|
||||
text: int
|
||||
int32:
|
||||
text: int32
|
||||
int16:
|
||||
text: int16
|
||||
short:
|
||||
text: short
|
||||
int8:
|
||||
text: int8
|
||||
uint:
|
||||
text: uint
|
||||
uint32:
|
||||
text: uint32
|
||||
uint16:
|
||||
text: uint16
|
||||
uint8:
|
||||
text: uint8
|
||||
uint64:
|
||||
text: uint64
|
||||
numeric:
|
||||
text: numeric
|
||||
text:
|
||||
text: text
|
||||
utf:
|
||||
text: utf
|
||||
utf8:
|
||||
text: utf8
|
||||
utf_8:
|
||||
text: utf_8
|
||||
ascii:
|
||||
text: ascii
|
||||
bool:
|
||||
text: bool
|
||||
isodatetime:
|
||||
text: isodatetime
|
||||
repr: np.datetime64
|
||||
classes:
|
||||
AnyType:
|
||||
name: AnyType
|
||||
|
|
|
|||
|
|
@ -30,33 +30,32 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Values of each feature at each time.
|
||||
multivalued: false
|
||||
range: AbstractFeatureSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
feature_units:
|
||||
name: feature_units
|
||||
description: Units of each feature.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_features
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
features:
|
||||
name: features
|
||||
description: Description of the features represented in TimeSeries::data.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_features
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
AbstractFeatureSeries__data:
|
||||
name: AbstractFeatureSeries__data
|
||||
|
|
@ -65,7 +64,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -96,18 +94,17 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Annotations made during an experiment.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
IntervalSeries:
|
||||
name: IntervalSeries
|
||||
|
|
@ -122,18 +119,17 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Use values >0 if interval started, <0 if interval ended.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: int8
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
DecompositionSeries:
|
||||
name: DecompositionSeries
|
||||
|
|
@ -142,35 +138,38 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Data decomposed into frequency bands.
|
||||
multivalued: false
|
||||
range: DecompositionSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
metric:
|
||||
name: metric
|
||||
description: The metric used, e.g. phase, amplitude, power.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
source_channels:
|
||||
name: source_channels
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: DynamicTableRegion pointer to the channels that this decomposition
|
||||
series was generated from.
|
||||
multivalued: false
|
||||
range: DecompositionSeries__source_channels
|
||||
range: DynamicTableRegion
|
||||
required: false
|
||||
multivalued: false
|
||||
bands:
|
||||
name: bands
|
||||
description: Table for describing the bands that this series was generated
|
||||
from. There should be one row in this table for each band.
|
||||
multivalued: false
|
||||
range: DecompositionSeries__bands
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
DecompositionSeries__data:
|
||||
name: DecompositionSeries__data
|
||||
|
|
@ -179,7 +178,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -197,19 +195,6 @@ classes:
|
|||
- alias: num_channels
|
||||
- alias: num_bands
|
||||
range: numeric
|
||||
DecompositionSeries__source_channels:
|
||||
name: DecompositionSeries__source_channels
|
||||
description: DynamicTableRegion pointer to the channels that this decomposition
|
||||
series was generated from.
|
||||
is_a: DynamicTableRegion
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(source_channels)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: source_channels
|
||||
DecompositionSeries__bands:
|
||||
name: DecompositionSeries__bands
|
||||
description: Table for describing the bands that this series was generated from.
|
||||
|
|
@ -219,20 +204,22 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(bands)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: bands
|
||||
band_name:
|
||||
name: band_name
|
||||
description: Name of the band, e.g. theta.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
band_limits:
|
||||
name: band_limits
|
||||
description: Low and high limit of each band in Hz. If it is a Gaussian filter,
|
||||
use 2 SD on either side of the center.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_bands
|
||||
|
|
@ -240,24 +227,25 @@ classes:
|
|||
exact_cardinality: 2
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
band_mean:
|
||||
name: band_mean
|
||||
description: The mean Gaussian filters, in Hz.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_bands
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
band_stdev:
|
||||
name: band_stdev
|
||||
description: The standard deviation of Gaussian filters, in Hz.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_bands
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
Units:
|
||||
name: Units
|
||||
description: Data about spiking units. Event times of observed units (e.g. cell,
|
||||
|
|
@ -267,31 +255,37 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(Units)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
spike_times_index:
|
||||
name: spike_times_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into the spike_times dataset.
|
||||
multivalued: false
|
||||
range: Units__spike_times_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
spike_times:
|
||||
name: spike_times
|
||||
description: Spike times for each unit.
|
||||
multivalued: false
|
||||
range: Units__spike_times
|
||||
required: false
|
||||
multivalued: false
|
||||
obs_intervals_index:
|
||||
name: obs_intervals_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into the obs_intervals dataset.
|
||||
multivalued: false
|
||||
range: Units__obs_intervals_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
obs_intervals:
|
||||
name: obs_intervals
|
||||
description: Observation intervals for each unit.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_intervals
|
||||
|
|
@ -299,29 +293,39 @@ classes:
|
|||
exact_cardinality: 2
|
||||
range: float64
|
||||
required: false
|
||||
multivalued: false
|
||||
electrodes_index:
|
||||
name: electrodes_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into electrodes.
|
||||
multivalued: false
|
||||
range: Units__electrodes_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
electrodes:
|
||||
name: electrodes
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Electrode that each spike unit came from, specified using a DynamicTableRegion.
|
||||
multivalued: false
|
||||
range: Units__electrodes
|
||||
range: DynamicTableRegion
|
||||
required: false
|
||||
multivalued: false
|
||||
electrode_group:
|
||||
name: electrode_group
|
||||
description: Electrode group that each spike unit came from.
|
||||
multivalued: true
|
||||
range: ElectrodeGroup
|
||||
required: false
|
||||
multivalued: true
|
||||
waveform_mean:
|
||||
name: waveform_mean
|
||||
description: Spike waveform mean for each spike unit.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -335,9 +339,9 @@ classes:
|
|||
waveform_sd:
|
||||
name: waveform_sd
|
||||
description: Spike waveform standard deviation for each spike unit.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -373,40 +377,36 @@ classes:
|
|||
order of the waveforms within a given unit x spike event should be in the
|
||||
same order as the electrodes referenced in the 'electrodes' column of this
|
||||
table. The number of samples for each waveform must be the same.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_waveforms
|
||||
- alias: num_samples
|
||||
range: numeric
|
||||
required: false
|
||||
multivalued: false
|
||||
waveforms_index:
|
||||
name: waveforms_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into the waveforms dataset. One value for every spike event.
|
||||
See 'waveforms' for more detail.
|
||||
multivalued: false
|
||||
range: Units__waveforms_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
waveforms_index_index:
|
||||
name: waveforms_index_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into the waveforms_index dataset. One value for every unit
|
||||
(row in the table). See 'waveforms' for more detail.
|
||||
multivalued: false
|
||||
range: Units__waveforms_index_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
Units__spike_times_index:
|
||||
name: Units__spike_times_index
|
||||
description: Index into the spike_times dataset.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(spike_times_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: spike_times_index
|
||||
Units__spike_times:
|
||||
name: Units__spike_times
|
||||
description: Spike times for each unit.
|
||||
|
|
@ -415,7 +415,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(spike_times)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: spike_times
|
||||
|
|
@ -427,65 +426,3 @@ classes:
|
|||
if the acquisition time series was smoothed/interpolated and it is possible
|
||||
for the spike time to be between samples.
|
||||
range: float64
|
||||
Units__obs_intervals_index:
|
||||
name: Units__obs_intervals_index
|
||||
description: Index into the obs_intervals dataset.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(obs_intervals_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: obs_intervals_index
|
||||
Units__electrodes_index:
|
||||
name: Units__electrodes_index
|
||||
description: Index into electrodes.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes_index
|
||||
Units__electrodes:
|
||||
name: Units__electrodes
|
||||
description: Electrode that each spike unit came from, specified using a DynamicTableRegion.
|
||||
is_a: DynamicTableRegion
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes
|
||||
Units__waveforms_index:
|
||||
name: Units__waveforms_index
|
||||
description: Index into the waveforms dataset. One value for every spike event.
|
||||
See 'waveforms' for more detail.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(waveforms_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: waveforms_index
|
||||
Units__waveforms_index_index:
|
||||
name: Units__waveforms_index_index
|
||||
description: Index into the waveforms_index dataset. One value for every unit
|
||||
(row in the table). See 'waveforms' for more detail.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(waveforms_index_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: waveforms_index_index
|
||||
|
|
|
|||
|
|
@ -21,18 +21,17 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Applied power for optogenetic stimulus, in watts.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
OptogeneticStimulusSite:
|
||||
name: OptogeneticStimulusSite
|
||||
|
|
@ -41,27 +40,26 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
name: description
|
||||
description: Description of stimulation site.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
excitation_lambda:
|
||||
name: excitation_lambda
|
||||
description: Excitation wavelength, in nm.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
location:
|
||||
name: location
|
||||
description: Location of the stimulation site. Specify the area, layer, comments
|
||||
on estimation of area/layer, stereotaxic coordinates if in vivo, etc. Use
|
||||
standard atlas names for anatomical regions when possible.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -23,7 +23,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
pmt_gain:
|
||||
|
|
@ -39,9 +38,9 @@ classes:
|
|||
field_of_view:
|
||||
name: field_of_view
|
||||
description: Width, height and depth of image, or imaged area, in meters.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -60,15 +59,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Signals from ROIs.
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -79,25 +77,16 @@ classes:
|
|||
- alias: num_rois
|
||||
rois:
|
||||
name: rois
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: DynamicTableRegion referencing into an ROITable containing information
|
||||
on the ROIs stored in this timeseries.
|
||||
range: DynamicTableRegion
|
||||
required: true
|
||||
multivalued: false
|
||||
range: RoiResponseSeries__rois
|
||||
required: true
|
||||
tree_root: true
|
||||
RoiResponseSeries__rois:
|
||||
name: RoiResponseSeries__rois
|
||||
description: DynamicTableRegion referencing into an ROITable containing information
|
||||
on the ROIs stored in this timeseries.
|
||||
is_a: DynamicTableRegion
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(rois)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: rois
|
||||
DfOverF:
|
||||
name: DfOverF
|
||||
description: dF/F information about a region of interest (ROI). Storage hierarchy
|
||||
|
|
@ -154,56 +143,51 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
image_mask:
|
||||
name: image_mask
|
||||
description: ROI masks for each ROI. Each image mask is the size of the original
|
||||
imaging plane (or volume) and members of the ROI are finite non-zero.
|
||||
multivalued: false
|
||||
range: AnyType
|
||||
range: PlaneSegmentation__image_mask
|
||||
required: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
- alias: num_roi
|
||||
- alias: num_x
|
||||
- alias: num_y
|
||||
- array:
|
||||
dimensions:
|
||||
- alias: num_roi
|
||||
- alias: num_x
|
||||
- alias: num_y
|
||||
- alias: num_z
|
||||
multivalued: false
|
||||
pixel_mask_index:
|
||||
name: pixel_mask_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into pixel_mask.
|
||||
multivalued: false
|
||||
range: PlaneSegmentation__pixel_mask_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
pixel_mask:
|
||||
name: pixel_mask
|
||||
description: 'Pixel masks for each ROI: a list of indices and weights for
|
||||
the ROI. Pixel masks are concatenated and parsing of this dataset is maintained
|
||||
by the PlaneSegmentation'
|
||||
multivalued: false
|
||||
range: PlaneSegmentation__pixel_mask
|
||||
required: false
|
||||
multivalued: false
|
||||
voxel_mask_index:
|
||||
name: voxel_mask_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into voxel_mask.
|
||||
multivalued: false
|
||||
range: PlaneSegmentation__voxel_mask_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
voxel_mask:
|
||||
name: voxel_mask
|
||||
description: 'Voxel masks for each ROI: a list of indices and weights for
|
||||
the ROI. Voxel masks are concatenated and parsing of this dataset is maintained
|
||||
by the PlaneSegmentation'
|
||||
multivalued: false
|
||||
range: PlaneSegmentation__voxel_mask
|
||||
required: false
|
||||
multivalued: false
|
||||
reference_images:
|
||||
name: reference_images
|
||||
description: Image stacks that the segmentation masks apply to.
|
||||
|
|
@ -213,18 +197,18 @@ classes:
|
|||
any_of:
|
||||
- range: ImageSeries
|
||||
tree_root: true
|
||||
PlaneSegmentation__pixel_mask_index:
|
||||
name: PlaneSegmentation__pixel_mask_index
|
||||
description: Index into pixel_mask.
|
||||
is_a: VectorIndex
|
||||
PlaneSegmentation__image_mask:
|
||||
name: PlaneSegmentation__image_mask
|
||||
description: ROI masks for each ROI. Each image mask is the size of the original
|
||||
imaging plane (or volume) and members of the ROI are finite non-zero.
|
||||
is_a: VectorData
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(pixel_mask_index)
|
||||
identifier: true
|
||||
ifabsent: string(image_mask)
|
||||
range: string
|
||||
required: true
|
||||
equals_string: pixel_mask_index
|
||||
equals_string: image_mask
|
||||
PlaneSegmentation__pixel_mask:
|
||||
name: PlaneSegmentation__pixel_mask
|
||||
description: 'Pixel masks for each ROI: a list of indices and weights for the
|
||||
|
|
@ -235,40 +219,27 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(pixel_mask)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: pixel_mask
|
||||
x:
|
||||
name: x
|
||||
description: Pixel x-coordinate.
|
||||
multivalued: false
|
||||
range: uint32
|
||||
required: false
|
||||
multivalued: false
|
||||
y:
|
||||
name: y
|
||||
description: Pixel y-coordinate.
|
||||
multivalued: false
|
||||
range: uint32
|
||||
required: false
|
||||
multivalued: false
|
||||
weight:
|
||||
name: weight
|
||||
description: Weight of the pixel.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
PlaneSegmentation__voxel_mask_index:
|
||||
name: PlaneSegmentation__voxel_mask_index
|
||||
description: Index into voxel_mask.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(voxel_mask_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: voxel_mask_index
|
||||
multivalued: false
|
||||
PlaneSegmentation__voxel_mask:
|
||||
name: PlaneSegmentation__voxel_mask
|
||||
description: 'Voxel masks for each ROI: a list of indices and weights for the
|
||||
|
|
@ -279,34 +250,33 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(voxel_mask)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: voxel_mask
|
||||
x:
|
||||
name: x
|
||||
description: Voxel x-coordinate.
|
||||
multivalued: false
|
||||
range: uint32
|
||||
required: false
|
||||
multivalued: false
|
||||
y:
|
||||
name: y
|
||||
description: Voxel y-coordinate.
|
||||
multivalued: false
|
||||
range: uint32
|
||||
required: false
|
||||
multivalued: false
|
||||
z:
|
||||
name: z
|
||||
description: Voxel z-coordinate.
|
||||
multivalued: false
|
||||
range: uint32
|
||||
required: false
|
||||
multivalued: false
|
||||
weight:
|
||||
name: weight
|
||||
description: Weight of the voxel.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
ImagingPlane:
|
||||
name: ImagingPlane
|
||||
description: An imaging plane and its metadata.
|
||||
|
|
@ -327,21 +297,20 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
name: description
|
||||
description: Description or other notes about the channel.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
emission_lambda:
|
||||
name: emission_lambda
|
||||
description: Emission wavelength for channel, in nm.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
MotionCorrection:
|
||||
name: MotionCorrection
|
||||
|
|
@ -365,20 +334,19 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
corrected:
|
||||
name: corrected
|
||||
description: Image stack with frames shifted to the common coordinates.
|
||||
multivalued: false
|
||||
range: ImageSeries
|
||||
required: true
|
||||
multivalued: false
|
||||
xy_translation:
|
||||
name: xy_translation
|
||||
description: Stores the x,y delta necessary to align each frame to the common
|
||||
coordinates, for example, to align each frame to a reference image.
|
||||
multivalued: false
|
||||
range: TimeSeries
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -29,68 +29,67 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(ImagingRetinotopy)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
axis_1_phase_map:
|
||||
name: axis_1_phase_map
|
||||
description: Phase response to stimulus on the first measured axis.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__axis_1_phase_map
|
||||
required: true
|
||||
multivalued: false
|
||||
axis_1_power_map:
|
||||
name: axis_1_power_map
|
||||
description: Power response on the first measured axis. Response is scaled
|
||||
so 0.0 is no power in the response and 1.0 is maximum relative power.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__axis_1_power_map
|
||||
required: false
|
||||
multivalued: false
|
||||
axis_2_phase_map:
|
||||
name: axis_2_phase_map
|
||||
description: Phase response to stimulus on the second measured axis.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__axis_2_phase_map
|
||||
required: true
|
||||
multivalued: false
|
||||
axis_2_power_map:
|
||||
name: axis_2_power_map
|
||||
description: Power response on the second measured axis. Response is scaled
|
||||
so 0.0 is no power in the response and 1.0 is maximum relative power.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__axis_2_power_map
|
||||
required: false
|
||||
multivalued: false
|
||||
axis_descriptions:
|
||||
name: axis_descriptions
|
||||
description: Two-element array describing the contents of the two response
|
||||
axis fields. Description should be something like ['altitude', 'azimuth']
|
||||
or '['radius', 'theta'].
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: axis_1_axis_2
|
||||
exact_cardinality: 2
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
focal_depth_image:
|
||||
name: focal_depth_image
|
||||
description: 'Gray-scale image taken with same settings/parameters (e.g.,
|
||||
focal depth, wavelength) as data collection. Array format: [rows][columns].'
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__focal_depth_image
|
||||
required: false
|
||||
multivalued: false
|
||||
sign_map:
|
||||
name: sign_map
|
||||
description: Sine of the angle between the direction of the gradient in axis_1
|
||||
and axis_2.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__sign_map
|
||||
required: false
|
||||
multivalued: false
|
||||
vasculature_image:
|
||||
name: vasculature_image
|
||||
description: 'Gray-scale anatomical image of cortical surface. Array structure:
|
||||
[rows][columns]'
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__vasculature_image
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ImagingRetinotopy__axis_1_phase_map:
|
||||
name: ImagingRetinotopy__axis_1_phase_map
|
||||
|
|
@ -99,7 +98,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(axis_1_phase_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: axis_1_phase_map
|
||||
|
|
@ -131,7 +129,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(axis_1_power_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: axis_1_power_map
|
||||
|
|
@ -162,7 +159,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(axis_2_phase_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: axis_2_phase_map
|
||||
|
|
@ -194,7 +190,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(axis_2_power_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: axis_2_power_map
|
||||
|
|
@ -226,7 +221,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(focal_depth_image)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: focal_depth_image
|
||||
|
|
@ -267,7 +261,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(sign_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: sign_map
|
||||
|
|
@ -295,7 +288,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(vasculature_image)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: vasculature_image
|
||||
|
|
|
|||
|
|
@ -21,7 +21,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -35,7 +34,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(timeseries)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
idx_start:
|
||||
|
|
@ -43,22 +41,22 @@ classes:
|
|||
description: Start index into the TimeSeries 'data' and 'timestamp' datasets
|
||||
of the referenced TimeSeries. The first dimension of those arrays is always
|
||||
time.
|
||||
multivalued: false
|
||||
range: int32
|
||||
required: true
|
||||
multivalued: false
|
||||
count:
|
||||
name: count
|
||||
description: Number of data samples available in this time series, during
|
||||
this epoch
|
||||
multivalued: false
|
||||
range: int32
|
||||
required: true
|
||||
multivalued: false
|
||||
timeseries:
|
||||
name: timeseries
|
||||
description: The TimeSeries that this index applies to
|
||||
multivalued: false
|
||||
range: TimeSeries
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
Image:
|
||||
name: Image
|
||||
|
|
@ -69,7 +67,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
resolution:
|
||||
|
|
@ -108,15 +105,8 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
image:
|
||||
name: image
|
||||
description: Ordered dataset of references to Image objects.
|
||||
multivalued: true
|
||||
range: Image
|
||||
required: true
|
||||
tree_root: true
|
||||
NWBContainer:
|
||||
name: NWBContainer
|
||||
|
|
@ -126,7 +116,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -138,7 +127,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -149,7 +137,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -168,49 +155,49 @@ classes:
|
|||
dimension should always represent time. This can also be used to store binary
|
||||
data (e.g., image frames). This can also be a link to data stored in an
|
||||
external file.
|
||||
multivalued: false
|
||||
range: TimeSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
starting_time:
|
||||
name: starting_time
|
||||
description: Timestamp of the first sample in seconds. When timestamps are
|
||||
uniformly spaced, the timestamp of the first sample can be specified and
|
||||
all subsequent ones calculated from the sampling rate attribute.
|
||||
multivalued: false
|
||||
range: TimeSeries__starting_time
|
||||
required: false
|
||||
multivalued: false
|
||||
timestamps:
|
||||
name: timestamps
|
||||
description: Timestamps for samples stored in data, in seconds, relative to
|
||||
the common experiment master-clock stored in NWBFile.timestamps_reference_time.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: float64
|
||||
required: false
|
||||
multivalued: false
|
||||
control:
|
||||
name: control
|
||||
description: Numerical labels that apply to each time point in data for the
|
||||
purpose of querying and slicing data by these values. If present, the length
|
||||
of this array should be the same size as the first dimension of data.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: uint8
|
||||
required: false
|
||||
multivalued: false
|
||||
control_description:
|
||||
name: control_description
|
||||
description: Description of each control value. Must be present if control
|
||||
is present. If present, control_description[0] should describe time points
|
||||
where control == 0.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_control_values
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
sync:
|
||||
name: sync
|
||||
description: Lab-specific time and sync information as provided directly from
|
||||
|
|
@ -219,9 +206,9 @@ classes:
|
|||
This group will usually only be populated in TimeSeries that are stored
|
||||
external to the NWB file, in files storing raw data. Once timestamp data
|
||||
is calculated, the contents of 'sync' are mostly for archival purposes.
|
||||
multivalued: false
|
||||
range: TimeSeries__sync
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
TimeSeries__data:
|
||||
name: TimeSeries__data
|
||||
|
|
@ -232,7 +219,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -312,7 +298,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(starting_time)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: starting_time
|
||||
|
|
@ -340,7 +325,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(sync)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: sync
|
||||
|
|
@ -368,7 +352,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(Images)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -378,30 +361,20 @@ classes:
|
|||
image:
|
||||
name: image
|
||||
description: Images stored in this collection.
|
||||
multivalued: true
|
||||
range: Image
|
||||
required: true
|
||||
multivalued: true
|
||||
order_of_images:
|
||||
name: order_of_images
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Ordered dataset of references to Image objects stored in the
|
||||
parent group. Each Image object in the Images group should be stored once
|
||||
and only once, so the dataset should have the same length as the number
|
||||
of images.
|
||||
multivalued: false
|
||||
range: Images__order_of_images
|
||||
range: ImageReferences
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
Images__order_of_images:
|
||||
name: Images__order_of_images
|
||||
description: Ordered dataset of references to Image objects stored in the parent
|
||||
group. Each Image object in the Images group should be stored once and only
|
||||
once, so the dataset should have the same length as the number of images.
|
||||
is_a: ImageReferences
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(order_of_images)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: order_of_images
|
||||
|
|
|
|||
|
|
@ -29,22 +29,21 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: 1-D or 2-D array storing position or direction relative to some
|
||||
reference frame.
|
||||
multivalued: false
|
||||
range: SpatialSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
reference_frame:
|
||||
name: reference_frame
|
||||
description: Description defining what exactly 'straight-ahead' means.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
SpatialSeries__data:
|
||||
name: SpatialSeries__data
|
||||
|
|
@ -54,7 +53,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
|
|||
|
|
@ -21,7 +21,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
|
|||
|
|
@ -25,7 +25,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
filtering:
|
||||
|
|
@ -41,9 +40,9 @@ classes:
|
|||
data:
|
||||
name: data
|
||||
description: Recorded voltage data.
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -59,11 +58,15 @@ classes:
|
|||
- alias: num_samples
|
||||
electrodes:
|
||||
name: electrodes
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: DynamicTableRegion pointer to the electrodes that this time series
|
||||
was generated from.
|
||||
multivalued: false
|
||||
range: ElectricalSeries__electrodes
|
||||
range: DynamicTableRegion
|
||||
required: true
|
||||
multivalued: false
|
||||
channel_conversion:
|
||||
name: channel_conversion
|
||||
description: Channel-specific conversion factor. Multiply the data in the
|
||||
|
|
@ -75,26 +78,13 @@ classes:
|
|||
as native values generated by data acquisition systems. If this dataset
|
||||
is not present, then there is no channel-specific conversion factor, i.e.
|
||||
it is 1 for all channels.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_channels
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ElectricalSeries__electrodes:
|
||||
name: ElectricalSeries__electrodes
|
||||
description: DynamicTableRegion pointer to the electrodes that this time series
|
||||
was generated from.
|
||||
is_a: DynamicTableRegion
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes
|
||||
SpikeEventSeries:
|
||||
name: SpikeEventSeries
|
||||
description: 'Stores snapshots/snippets of recorded spike events (i.e., threshold
|
||||
|
|
@ -109,15 +99,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Spike waveforms.
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -134,12 +123,12 @@ classes:
|
|||
the common experiment master-clock stored in NWBFile.timestamps_reference_time.
|
||||
Timestamps are required for the events. Unlike for TimeSeries, timestamps
|
||||
are required for SpikeEventSeries and are thus re-specified here.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: float64
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
FeatureExtraction:
|
||||
name: FeatureExtraction
|
||||
|
|
@ -150,23 +139,21 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(FeatureExtraction)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
name: description
|
||||
description: Description of features (eg, ''PC1'') for each of the extracted
|
||||
features.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_features
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
features:
|
||||
name: features
|
||||
description: Multi-dimensional array of features extracted from each event.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
|
|
@ -174,36 +161,28 @@ classes:
|
|||
- alias: num_features
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
times:
|
||||
name: times
|
||||
description: Times of events that features correspond to (can be a link).
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: float64
|
||||
required: true
|
||||
multivalued: false
|
||||
electrodes:
|
||||
name: electrodes
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: DynamicTableRegion pointer to the electrodes that this time series
|
||||
was generated from.
|
||||
range: DynamicTableRegion
|
||||
required: true
|
||||
multivalued: false
|
||||
range: FeatureExtraction__electrodes
|
||||
required: true
|
||||
tree_root: true
|
||||
FeatureExtraction__electrodes:
|
||||
name: FeatureExtraction__electrodes
|
||||
description: DynamicTableRegion pointer to the electrodes that this time series
|
||||
was generated from.
|
||||
is_a: DynamicTableRegion
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes
|
||||
EventDetection:
|
||||
name: EventDetection
|
||||
description: Detected spike events from voltage trace(s).
|
||||
|
|
@ -212,37 +191,36 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(EventDetection)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
detection_method:
|
||||
name: detection_method
|
||||
description: Description of how events were detected, such as voltage threshold,
|
||||
or dV/dT threshold, as well as relevant values.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
source_idx:
|
||||
name: source_idx
|
||||
description: Indices (zero-based) into source ElectricalSeries::data array
|
||||
corresponding to time of event. ''description'' should define what is meant
|
||||
by time of event (e.g., .25 ms before action potential peak, zero-crossing
|
||||
time, etc). The index points to each event from the raw data.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: int32
|
||||
required: true
|
||||
multivalued: false
|
||||
times:
|
||||
name: times
|
||||
description: Timestamps of events, in seconds.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: float64
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
EventWaveform:
|
||||
name: EventWaveform
|
||||
|
|
@ -304,7 +282,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -320,9 +297,9 @@ classes:
|
|||
position:
|
||||
name: position
|
||||
description: stereotaxic or common framework coordinates
|
||||
multivalued: false
|
||||
range: ElectrodeGroup__position
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ElectrodeGroup__position:
|
||||
name: ElectrodeGroup__position
|
||||
|
|
@ -331,28 +308,27 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(position)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: position
|
||||
x:
|
||||
name: x
|
||||
description: x coordinate
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
y:
|
||||
name: y
|
||||
description: y coordinate
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
z:
|
||||
name: z
|
||||
description: z coordinate
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
ClusterWaveforms:
|
||||
name: ClusterWaveforms
|
||||
description: DEPRECATED The mean waveform shape, including standard deviation,
|
||||
|
|
@ -366,39 +342,38 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(ClusterWaveforms)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
waveform_filtering:
|
||||
name: waveform_filtering
|
||||
description: Filtering applied to data before generating mean/sd
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
waveform_mean:
|
||||
name: waveform_mean
|
||||
description: The mean waveform for each cluster, using the same indices for
|
||||
each wave as cluster numbers in the associated Clustering module (i.e, cluster
|
||||
3 is in array slot [3]). Waveforms corresponding to gaps in cluster sequence
|
||||
should be empty (e.g., zero- filled)
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_clusters
|
||||
- alias: num_samples
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
waveform_sd:
|
||||
name: waveform_sd
|
||||
description: Stdev of waveforms for each cluster, using the same indices as
|
||||
in mean
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_clusters
|
||||
- alias: num_samples
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
Clustering:
|
||||
name: Clustering
|
||||
|
|
@ -409,43 +384,42 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(Clustering)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
name: description
|
||||
description: Description of clusters or clustering, (e.g. cluster 0 is noise,
|
||||
clusters curated using Klusters, etc)
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
num:
|
||||
name: num
|
||||
description: Cluster number of each event
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: int32
|
||||
required: true
|
||||
multivalued: false
|
||||
peak_over_rms:
|
||||
name: peak_over_rms
|
||||
description: Maximum ratio of waveform peak to RMS on any channel in the cluster
|
||||
(provides a basic clustering metric).
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_clusters
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
times:
|
||||
name: times
|
||||
description: Times of clustered events, in seconds. This may be a link to
|
||||
times field in associated FeatureExtraction module.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: float64
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -22,76 +22,63 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
start_time:
|
||||
name: start_time
|
||||
description: Start time of epoch, in seconds.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
stop_time:
|
||||
name: stop_time
|
||||
description: Stop time of epoch, in seconds.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
tags:
|
||||
name: tags
|
||||
description: User-defined tags that identify or categorize events.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tags_index:
|
||||
name: tags_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index for tags.
|
||||
multivalued: false
|
||||
range: TimeIntervals__tags_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
timeseries:
|
||||
name: timeseries
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: An index into a TimeSeries object.
|
||||
multivalued: false
|
||||
range: TimeIntervals__timeseries
|
||||
range: TimeSeriesReferenceVectorData
|
||||
required: false
|
||||
multivalued: false
|
||||
timeseries_index:
|
||||
name: timeseries_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index for timeseries.
|
||||
multivalued: false
|
||||
range: TimeIntervals__timeseries_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
TimeIntervals__tags_index:
|
||||
name: TimeIntervals__tags_index
|
||||
description: Index for tags.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(tags_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: tags_index
|
||||
TimeIntervals__timeseries:
|
||||
name: TimeIntervals__timeseries
|
||||
description: An index into a TimeSeries object.
|
||||
is_a: TimeSeriesReferenceVectorData
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(timeseries)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: timeseries
|
||||
TimeIntervals__timeseries_index:
|
||||
name: TimeIntervals__timeseries_index
|
||||
description: Index for timeseries.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(timeseries_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: timeseries_index
|
||||
|
|
|
|||
|
|
@ -28,7 +28,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
notes:
|
||||
|
|
@ -45,7 +44,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(root)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: root
|
||||
|
|
@ -63,36 +61,36 @@ classes:
|
|||
The file can be created after the experiment was run, so this may differ
|
||||
from the experiment start time. Each modification to the nwb file adds a
|
||||
new entry to the array.'
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_modifications
|
||||
range: isodatetime
|
||||
required: true
|
||||
multivalued: false
|
||||
identifier:
|
||||
name: identifier
|
||||
description: A unique text identifier for the file. For example, concatenated
|
||||
lab name, file creation date/time and experimentalist, or a hash of these
|
||||
and/or other values. The goal is that the string should be unique to all
|
||||
other files.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
session_description:
|
||||
name: session_description
|
||||
description: A description of the experimental session and data in the file.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
session_start_time:
|
||||
name: session_start_time
|
||||
description: 'Date and time of the experiment/session start. The date is stored
|
||||
in UTC with local timezone offset as ISO 8601 extended formatted string:
|
||||
2018-09-28T14:43:54.123+02:00. Dates stored in UTC end in "Z" with no timezone
|
||||
offset. Date accuracy is up to milliseconds.'
|
||||
multivalued: false
|
||||
range: isodatetime
|
||||
required: true
|
||||
multivalued: false
|
||||
timestamps_reference_time:
|
||||
name: timestamps_reference_time
|
||||
description: 'Date and time corresponding to time zero of all timestamps.
|
||||
|
|
@ -100,9 +98,9 @@ classes:
|
|||
formatted string: 2018-09-28T14:43:54.123+02:00. Dates stored in UTC end
|
||||
in "Z" with no timezone offset. Date accuracy is up to milliseconds. All
|
||||
times stored in the file use this time as reference (i.e., time zero).'
|
||||
multivalued: false
|
||||
range: isodatetime
|
||||
required: true
|
||||
multivalued: false
|
||||
acquisition:
|
||||
name: acquisition
|
||||
description: Data streams recorded from the system, including ephys, ophys,
|
||||
|
|
@ -179,9 +177,9 @@ classes:
|
|||
an experiment. The stimulus group is organized so that one version of template
|
||||
stimuli can be stored and these be used multiple times. These templates
|
||||
can exist in the present file or can be linked to a remote library file.
|
||||
multivalued: false
|
||||
range: NWBFile__stimulus
|
||||
required: true
|
||||
multivalued: false
|
||||
general:
|
||||
name: general
|
||||
description: Experimental metadata, including protocol, notes and description
|
||||
|
|
@ -199,9 +197,9 @@ classes:
|
|||
datasets. All entries in the below table are to be included when data is
|
||||
present. Unused groups (e.g., intracellular_ephys in an optophysiology experiment)
|
||||
should not be created unless there is data to store within them.
|
||||
multivalued: false
|
||||
range: NWBFile__general
|
||||
required: true
|
||||
multivalued: false
|
||||
intervals:
|
||||
name: intervals
|
||||
description: Experimental intervals, whether that be logically distinct sub-experiments
|
||||
|
|
@ -219,9 +217,9 @@ classes:
|
|||
units:
|
||||
name: units
|
||||
description: Data about sorted spike units.
|
||||
multivalued: false
|
||||
range: Units
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
NWBFile__stimulus:
|
||||
name: NWBFile__stimulus
|
||||
|
|
@ -241,7 +239,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(stimulus)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: stimulus
|
||||
|
|
@ -285,129 +282,128 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(general)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: general
|
||||
data_collection:
|
||||
name: data_collection
|
||||
description: Notes about data collection and analysis.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
experiment_description:
|
||||
name: experiment_description
|
||||
description: General description of the experiment.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
experimenter:
|
||||
name: experimenter
|
||||
description: Name of person(s) who performed the experiment. Can also specify
|
||||
roles of different people involved.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_experimenters
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
institution:
|
||||
name: institution
|
||||
description: Institution(s) where experiment was performed.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
keywords:
|
||||
name: keywords
|
||||
description: Terms to search over.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_keywords
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
lab:
|
||||
name: lab
|
||||
description: Laboratory where experiment was performed.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
notes:
|
||||
name: notes
|
||||
description: Notes about the experiment.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
pharmacology:
|
||||
name: pharmacology
|
||||
description: Description of drugs used, including how and when they were administered.
|
||||
Anesthesia(s), painkiller(s), etc., plus dosage, concentration, etc.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
protocol:
|
||||
name: protocol
|
||||
description: Experimental protocol, if applicable. e.g., include IACUC protocol
|
||||
number.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
related_publications:
|
||||
name: related_publications
|
||||
description: Publication information. PMID, DOI, URL, etc.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_publications
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
session_id:
|
||||
name: session_id
|
||||
description: Lab-specific ID for the session.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
slices:
|
||||
name: slices
|
||||
description: Description of slices, including information about preparation
|
||||
thickness, orientation, temperature, and bath solution.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
source_script:
|
||||
name: source_script
|
||||
description: Script file or link to public source code used to create this
|
||||
NWB file.
|
||||
multivalued: false
|
||||
range: NWBFile__general__source_script
|
||||
required: false
|
||||
multivalued: false
|
||||
stimulus:
|
||||
name: stimulus
|
||||
description: Notes about stimuli, such as how and where they were presented.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
surgery:
|
||||
name: surgery
|
||||
description: Narrative description about surgery/surgeries, including date(s)
|
||||
and who performed surgery.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
virus:
|
||||
name: virus
|
||||
description: Information about virus(es) used in experiments, including virus
|
||||
ID, source, date made, injection location, volume, etc.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
lab_meta_data:
|
||||
name: lab_meta_data
|
||||
description: Place-holder than can be extended so that lab-specific meta-data
|
||||
can be placed in /general.
|
||||
multivalued: true
|
||||
range: LabMetaData
|
||||
required: false
|
||||
multivalued: true
|
||||
devices:
|
||||
name: devices
|
||||
description: Description of hardware devices used during experiment, e.g.,
|
||||
|
|
@ -421,21 +417,21 @@ classes:
|
|||
name: subject
|
||||
description: Information about the animal or person from which the data was
|
||||
measured.
|
||||
multivalued: false
|
||||
range: Subject
|
||||
required: false
|
||||
multivalued: false
|
||||
extracellular_ephys:
|
||||
name: extracellular_ephys
|
||||
description: Metadata related to extracellular electrophysiology.
|
||||
multivalued: false
|
||||
range: NWBFile__general__extracellular_ephys
|
||||
required: false
|
||||
multivalued: false
|
||||
intracellular_ephys:
|
||||
name: intracellular_ephys
|
||||
description: Metadata related to intracellular electrophysiology.
|
||||
multivalued: false
|
||||
range: NWBFile__general__intracellular_ephys
|
||||
required: false
|
||||
multivalued: false
|
||||
optogenetics:
|
||||
name: optogenetics
|
||||
description: Metadata describing optogenetic stimuluation.
|
||||
|
|
@ -460,7 +456,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(source_script)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: source_script
|
||||
|
|
@ -479,22 +474,21 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(extracellular_ephys)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: extracellular_ephys
|
||||
electrode_group:
|
||||
name: electrode_group
|
||||
description: Physical group of electrodes.
|
||||
multivalued: true
|
||||
range: ElectrodeGroup
|
||||
required: false
|
||||
multivalued: true
|
||||
electrodes:
|
||||
name: electrodes
|
||||
description: A table of all electrodes (i.e. channels) used for recording.
|
||||
multivalued: false
|
||||
range: NWBFile__general__extracellular_ephys__electrodes
|
||||
required: false
|
||||
multivalued: false
|
||||
NWBFile__general__extracellular_ephys__electrodes:
|
||||
name: NWBFile__general__extracellular_ephys__electrodes
|
||||
description: A table of all electrodes (i.e. channels) used for recording.
|
||||
|
|
@ -503,75 +497,119 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes
|
||||
x:
|
||||
name: x
|
||||
description: x coordinate of the channel location in the brain (+x is posterior).
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
y:
|
||||
name: y
|
||||
description: y coordinate of the channel location in the brain (+y is inferior).
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
z:
|
||||
name: z
|
||||
description: z coordinate of the channel location in the brain (+z is right).
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
imp:
|
||||
name: imp
|
||||
description: Impedance of the channel, in ohms.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
location:
|
||||
name: location
|
||||
description: Location of the electrode (channel). Specify the area, layer,
|
||||
comments on estimation of area/layer, stereotaxic coordinates if in vivo,
|
||||
etc. Use standard atlas names for anatomical regions when possible.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
filtering:
|
||||
name: filtering
|
||||
description: Description of hardware filtering, including the filter name
|
||||
and frequency cutoffs.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
group:
|
||||
name: group
|
||||
description: Reference to the ElectrodeGroup this electrode is a part of.
|
||||
multivalued: true
|
||||
range: ElectrodeGroup
|
||||
required: true
|
||||
multivalued: true
|
||||
group_name:
|
||||
name: group_name
|
||||
description: Name of the ElectrodeGroup this electrode is a part of.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
rel_x:
|
||||
name: rel_x
|
||||
description: x coordinate in electrode group
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
rel_y:
|
||||
name: rel_y
|
||||
description: y coordinate in electrode group
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
rel_z:
|
||||
name: rel_z
|
||||
description: z coordinate in electrode group
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
reference:
|
||||
name: reference
|
||||
description: Description of the reference electrode and/or reference scheme
|
||||
used for this electrode, e.g., "stainless steel skull screw" or "online
|
||||
common average referencing".
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
NWBFile__general__intracellular_ephys:
|
||||
name: NWBFile__general__intracellular_ephys
|
||||
description: Metadata related to intracellular electrophysiology.
|
||||
|
|
@ -579,7 +617,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(intracellular_ephys)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: intracellular_ephys
|
||||
|
|
@ -589,24 +626,24 @@ classes:
|
|||
of filtering used. Includes filtering type and parameters, frequency fall-off,
|
||||
etc. If this changes between TimeSeries, filter description should be stored
|
||||
as a text attribute for each TimeSeries.'
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
intracellular_electrode:
|
||||
name: intracellular_electrode
|
||||
description: An intracellular electrode.
|
||||
multivalued: true
|
||||
range: IntracellularElectrode
|
||||
required: false
|
||||
multivalued: true
|
||||
sweep_table:
|
||||
name: sweep_table
|
||||
description: '[DEPRECATED] Table used to group different PatchClampSeries.
|
||||
SweepTable is being replaced by IntracellularRecordingsTable and SimultaneousRecordingsTable
|
||||
tabels. Additional SequentialRecordingsTable, RepetitionsTable and ExperimentalConditions
|
||||
tables provide enhanced support for experiment metadata.'
|
||||
multivalued: false
|
||||
range: SweepTable
|
||||
required: false
|
||||
multivalued: false
|
||||
intracellular_recordings:
|
||||
name: intracellular_recordings
|
||||
description: A table to group together a stimulus and response from a single
|
||||
|
|
@ -621,42 +658,42 @@ classes:
|
|||
PatchClampSeries. However, the use of AD/DA channels that are not associated
|
||||
to an electrode is also common in intracellular electrophysiology, in which
|
||||
case other TimeSeries may be used.
|
||||
multivalued: false
|
||||
range: IntracellularRecordingsTable
|
||||
required: false
|
||||
multivalued: false
|
||||
simultaneous_recordings:
|
||||
name: simultaneous_recordings
|
||||
description: A table for grouping different intracellular recordings from
|
||||
the IntracellularRecordingsTable table together that were recorded simultaneously
|
||||
from different electrodes
|
||||
multivalued: false
|
||||
range: SimultaneousRecordingsTable
|
||||
required: false
|
||||
multivalued: false
|
||||
sequential_recordings:
|
||||
name: sequential_recordings
|
||||
description: A table for grouping different sequential recordings from the
|
||||
SimultaneousRecordingsTable table together. This is typically used to group
|
||||
together sequential recordings where the a sequence of stimuli of the same
|
||||
type with varying parameters have been presented in a sequence.
|
||||
multivalued: false
|
||||
range: SequentialRecordingsTable
|
||||
required: false
|
||||
multivalued: false
|
||||
repetitions:
|
||||
name: repetitions
|
||||
description: A table for grouping different sequential intracellular recordings
|
||||
together. With each SequentialRecording typically representing a particular
|
||||
type of stimulus, the RepetitionsTable table is typically used to group
|
||||
sets of stimuli applied in sequence.
|
||||
multivalued: false
|
||||
range: RepetitionsTable
|
||||
required: false
|
||||
multivalued: false
|
||||
experimental_conditions:
|
||||
name: experimental_conditions
|
||||
description: A table for grouping different intracellular recording repetitions
|
||||
together that belong to the same experimental experimental_conditions.
|
||||
multivalued: false
|
||||
range: ExperimentalConditionsTable
|
||||
required: false
|
||||
multivalued: false
|
||||
LabMetaData:
|
||||
name: LabMetaData
|
||||
description: Lab-specific meta-data.
|
||||
|
|
@ -664,7 +701,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -675,65 +711,64 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
age:
|
||||
name: age
|
||||
description: Age of subject. Can be supplied instead of 'date_of_birth'.
|
||||
multivalued: false
|
||||
range: Subject__age
|
||||
required: false
|
||||
multivalued: false
|
||||
date_of_birth:
|
||||
name: date_of_birth
|
||||
description: Date of birth of subject. Can be supplied instead of 'age'.
|
||||
multivalued: false
|
||||
range: isodatetime
|
||||
required: false
|
||||
multivalued: false
|
||||
description:
|
||||
name: description
|
||||
description: Description of subject and where subject came from (e.g., breeder,
|
||||
if animal).
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
genotype:
|
||||
name: genotype
|
||||
description: Genetic strain. If absent, assume Wild Type (WT).
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
sex:
|
||||
name: sex
|
||||
description: Gender of subject.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
species:
|
||||
name: species
|
||||
description: Species of subject.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
strain:
|
||||
name: strain
|
||||
description: Strain of subject.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
subject_id:
|
||||
name: subject_id
|
||||
description: ID of animal/person used/participating in experiment (lab convention).
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
weight:
|
||||
name: weight
|
||||
description: Weight at time of experiment, at time of surgery and at other
|
||||
important times.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
Subject__age:
|
||||
name: Subject__age
|
||||
|
|
@ -742,7 +777,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(age)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: age
|
||||
|
|
|
|||
|
|
@ -23,7 +23,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
stimulus_description:
|
||||
|
|
@ -37,16 +36,16 @@ classes:
|
|||
data:
|
||||
name: data
|
||||
description: Recorded voltage or current.
|
||||
multivalued: false
|
||||
range: PatchClampSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
gain:
|
||||
name: gain
|
||||
description: Gain of the recording, in units Volt/Amp (v-clamp) or Volt/Volt
|
||||
(c-clamp).
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
PatchClampSeries__data:
|
||||
name: PatchClampSeries__data
|
||||
|
|
@ -55,7 +54,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -80,33 +78,32 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Recorded voltage.
|
||||
multivalued: false
|
||||
range: CurrentClampSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
bias_current:
|
||||
name: bias_current
|
||||
description: Bias current, in amps.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
bridge_balance:
|
||||
name: bridge_balance
|
||||
description: Bridge balance, in ohms.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
capacitance_compensation:
|
||||
name: capacitance_compensation
|
||||
description: Capacitance compensation, in farads.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
CurrentClampSeries__data:
|
||||
name: CurrentClampSeries__data
|
||||
|
|
@ -115,7 +112,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -140,7 +136,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
stimulus_description:
|
||||
|
|
@ -151,21 +146,21 @@ classes:
|
|||
bias_current:
|
||||
name: bias_current
|
||||
description: Bias current, in amps, fixed to 0.0.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
bridge_balance:
|
||||
name: bridge_balance
|
||||
description: Bridge balance, in ohms, fixed to 0.0.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
capacitance_compensation:
|
||||
name: capacitance_compensation
|
||||
description: Capacitance compensation, in farads, fixed to 0.0.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
CurrentClampStimulusSeries:
|
||||
name: CurrentClampStimulusSeries
|
||||
|
|
@ -174,15 +169,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Stimulus current applied.
|
||||
multivalued: false
|
||||
range: CurrentClampStimulusSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
CurrentClampStimulusSeries__data:
|
||||
name: CurrentClampStimulusSeries__data
|
||||
|
|
@ -191,7 +185,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -215,57 +208,56 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Recorded current.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
capacitance_fast:
|
||||
name: capacitance_fast
|
||||
description: Fast capacitance, in farads.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__capacitance_fast
|
||||
required: false
|
||||
multivalued: false
|
||||
capacitance_slow:
|
||||
name: capacitance_slow
|
||||
description: Slow capacitance, in farads.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__capacitance_slow
|
||||
required: false
|
||||
multivalued: false
|
||||
resistance_comp_bandwidth:
|
||||
name: resistance_comp_bandwidth
|
||||
description: Resistance compensation bandwidth, in hertz.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__resistance_comp_bandwidth
|
||||
required: false
|
||||
multivalued: false
|
||||
resistance_comp_correction:
|
||||
name: resistance_comp_correction
|
||||
description: Resistance compensation correction, in percent.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__resistance_comp_correction
|
||||
required: false
|
||||
multivalued: false
|
||||
resistance_comp_prediction:
|
||||
name: resistance_comp_prediction
|
||||
description: Resistance compensation prediction, in percent.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__resistance_comp_prediction
|
||||
required: false
|
||||
multivalued: false
|
||||
whole_cell_capacitance_comp:
|
||||
name: whole_cell_capacitance_comp
|
||||
description: Whole cell capacitance compensation, in farads.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__whole_cell_capacitance_comp
|
||||
required: false
|
||||
multivalued: false
|
||||
whole_cell_series_resistance_comp:
|
||||
name: whole_cell_series_resistance_comp
|
||||
description: Whole cell series resistance compensation, in ohms.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__whole_cell_series_resistance_comp
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
VoltageClampSeries__data:
|
||||
name: VoltageClampSeries__data
|
||||
|
|
@ -274,7 +266,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -296,7 +287,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(capacitance_fast)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: capacitance_fast
|
||||
|
|
@ -315,7 +305,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(capacitance_slow)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: capacitance_slow
|
||||
|
|
@ -334,7 +323,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(resistance_comp_bandwidth)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: resistance_comp_bandwidth
|
||||
|
|
@ -354,7 +342,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(resistance_comp_correction)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: resistance_comp_correction
|
||||
|
|
@ -374,7 +361,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(resistance_comp_prediction)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: resistance_comp_prediction
|
||||
|
|
@ -394,7 +380,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(whole_cell_capacitance_comp)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: whole_cell_capacitance_comp
|
||||
|
|
@ -414,7 +399,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(whole_cell_series_resistance_comp)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: whole_cell_series_resistance_comp
|
||||
|
|
@ -434,15 +418,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Stimulus voltage applied.
|
||||
multivalued: false
|
||||
range: VoltageClampStimulusSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
VoltageClampStimulusSeries__data:
|
||||
name: VoltageClampStimulusSeries__data
|
||||
|
|
@ -451,7 +434,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -473,59 +455,58 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
cell_id:
|
||||
name: cell_id
|
||||
description: unique ID of the cell
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
description:
|
||||
name: description
|
||||
description: Description of electrode (e.g., whole-cell, sharp, etc.).
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
filtering:
|
||||
name: filtering
|
||||
description: Electrode specific filtering.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
initial_access_resistance:
|
||||
name: initial_access_resistance
|
||||
description: Initial access resistance.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
location:
|
||||
name: location
|
||||
description: Location of the electrode. Specify the area, layer, comments
|
||||
on estimation of area/layer, stereotaxic coordinates if in vivo, etc. Use
|
||||
standard atlas names for anatomical regions when possible.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
resistance:
|
||||
name: resistance
|
||||
description: Electrode resistance, in ohms.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
seal:
|
||||
name: seal
|
||||
description: Information about seal used for recording.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
slice:
|
||||
name: slice
|
||||
description: Information about slice used for recording.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
SweepTable:
|
||||
name: SweepTable
|
||||
|
|
@ -537,38 +518,34 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
sweep_number:
|
||||
name: sweep_number
|
||||
description: Sweep number of the PatchClampSeries in that row.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: uint32
|
||||
required: true
|
||||
multivalued: false
|
||||
series:
|
||||
name: series
|
||||
description: The PatchClampSeries with the sweep number in that row.
|
||||
multivalued: true
|
||||
range: PatchClampSeries
|
||||
required: true
|
||||
multivalued: true
|
||||
series_index:
|
||||
name: series_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index for series.
|
||||
range: VectorIndex
|
||||
required: true
|
||||
multivalued: false
|
||||
range: SweepTable__series_index
|
||||
required: true
|
||||
tree_root: true
|
||||
SweepTable__series_index:
|
||||
name: SweepTable__series_index
|
||||
description: Index for series.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(series_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: series_index
|
||||
IntracellularElectrodesTable:
|
||||
name: IntracellularElectrodesTable
|
||||
description: Table for storing intracellular electrode related metadata.
|
||||
|
|
@ -576,7 +553,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -586,8 +562,9 @@ classes:
|
|||
electrode:
|
||||
name: electrode
|
||||
description: Column for storing the reference to the intracellular electrode.
|
||||
multivalued: true
|
||||
range: IntracellularElectrode
|
||||
required: true
|
||||
multivalued: true
|
||||
tree_root: true
|
||||
IntracellularStimuliTable:
|
||||
name: IntracellularStimuliTable
|
||||
|
|
@ -596,7 +573,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -605,25 +581,16 @@ classes:
|
|||
range: text
|
||||
stimulus:
|
||||
name: stimulus
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Column storing the reference to the recorded stimulus for the
|
||||
recording (rows).
|
||||
range: TimeSeriesReferenceVectorData
|
||||
required: true
|
||||
multivalued: false
|
||||
range: IntracellularStimuliTable__stimulus
|
||||
required: true
|
||||
tree_root: true
|
||||
IntracellularStimuliTable__stimulus:
|
||||
name: IntracellularStimuliTable__stimulus
|
||||
description: Column storing the reference to the recorded stimulus for the recording
|
||||
(rows).
|
||||
is_a: TimeSeriesReferenceVectorData
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(stimulus)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: stimulus
|
||||
IntracellularResponsesTable:
|
||||
name: IntracellularResponsesTable
|
||||
description: Table for storing intracellular response related metadata.
|
||||
|
|
@ -631,7 +598,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -640,25 +606,16 @@ classes:
|
|||
range: text
|
||||
response:
|
||||
name: response
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Column storing the reference to the recorded response for the
|
||||
recording (rows)
|
||||
range: TimeSeriesReferenceVectorData
|
||||
required: true
|
||||
multivalued: false
|
||||
range: IntracellularResponsesTable__response
|
||||
required: true
|
||||
tree_root: true
|
||||
IntracellularResponsesTable__response:
|
||||
name: IntracellularResponsesTable__response
|
||||
description: Column storing the reference to the recorded response for the recording
|
||||
(rows)
|
||||
is_a: TimeSeriesReferenceVectorData
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(response)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: response
|
||||
IntracellularRecordingsTable:
|
||||
name: IntracellularRecordingsTable
|
||||
description: A table to group together a stimulus and response from a single electrode
|
||||
|
|
@ -677,7 +634,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(intracellular_recordings)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: intracellular_recordings
|
||||
|
|
@ -689,21 +645,21 @@ classes:
|
|||
electrodes:
|
||||
name: electrodes
|
||||
description: Table for storing intracellular electrode related metadata.
|
||||
multivalued: false
|
||||
range: IntracellularElectrodesTable
|
||||
required: true
|
||||
multivalued: false
|
||||
stimuli:
|
||||
name: stimuli
|
||||
description: Table for storing intracellular stimulus related metadata.
|
||||
multivalued: false
|
||||
range: IntracellularStimuliTable
|
||||
required: true
|
||||
multivalued: false
|
||||
responses:
|
||||
name: responses
|
||||
description: Table for storing intracellular response related metadata.
|
||||
multivalued: false
|
||||
range: IntracellularResponsesTable
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
SimultaneousRecordingsTable:
|
||||
name: SimultaneousRecordingsTable
|
||||
|
|
@ -715,7 +671,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(simultaneous_recordings)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: simultaneous_recordings
|
||||
|
|
@ -723,15 +678,19 @@ classes:
|
|||
name: recordings
|
||||
description: A reference to one or more rows in the IntracellularRecordingsTable
|
||||
table.
|
||||
multivalued: false
|
||||
range: SimultaneousRecordingsTable__recordings
|
||||
required: true
|
||||
multivalued: false
|
||||
recordings_index:
|
||||
name: recordings_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index dataset for the recordings column.
|
||||
multivalued: false
|
||||
range: SimultaneousRecordingsTable__recordings_index
|
||||
range: VectorIndex
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
SimultaneousRecordingsTable__recordings:
|
||||
name: SimultaneousRecordingsTable__recordings
|
||||
|
|
@ -742,7 +701,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(recordings)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: recordings
|
||||
|
|
@ -752,18 +710,6 @@ classes:
|
|||
table region applies to. This specializes the attribute inherited from DynamicTableRegion
|
||||
to fix the type of table that can be referenced here.
|
||||
range: IntracellularRecordingsTable
|
||||
SimultaneousRecordingsTable__recordings_index:
|
||||
name: SimultaneousRecordingsTable__recordings_index
|
||||
description: Index dataset for the recordings column.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(recordings_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: recordings_index
|
||||
SequentialRecordingsTable:
|
||||
name: SequentialRecordingsTable
|
||||
description: A table for grouping different sequential recordings from the SimultaneousRecordingsTable
|
||||
|
|
@ -775,7 +721,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(sequential_recordings)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: sequential_recordings
|
||||
|
|
@ -783,20 +728,28 @@ classes:
|
|||
name: simultaneous_recordings
|
||||
description: A reference to one or more rows in the SimultaneousRecordingsTable
|
||||
table.
|
||||
multivalued: false
|
||||
range: SequentialRecordingsTable__simultaneous_recordings
|
||||
required: true
|
||||
multivalued: false
|
||||
simultaneous_recordings_index:
|
||||
name: simultaneous_recordings_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index dataset for the simultaneous_recordings column.
|
||||
multivalued: false
|
||||
range: SequentialRecordingsTable__simultaneous_recordings_index
|
||||
range: VectorIndex
|
||||
required: true
|
||||
multivalued: false
|
||||
stimulus_type:
|
||||
name: stimulus_type
|
||||
description: The type of stimulus used for the sequential recording.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
SequentialRecordingsTable__simultaneous_recordings:
|
||||
name: SequentialRecordingsTable__simultaneous_recordings
|
||||
|
|
@ -807,7 +760,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(simultaneous_recordings)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: simultaneous_recordings
|
||||
|
|
@ -817,18 +769,6 @@ classes:
|
|||
table region applies to. This specializes the attribute inherited from DynamicTableRegion
|
||||
to fix the type of table that can be referenced here.
|
||||
range: SimultaneousRecordingsTable
|
||||
SequentialRecordingsTable__simultaneous_recordings_index:
|
||||
name: SequentialRecordingsTable__simultaneous_recordings_index
|
||||
description: Index dataset for the simultaneous_recordings column.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(simultaneous_recordings_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: simultaneous_recordings_index
|
||||
RepetitionsTable:
|
||||
name: RepetitionsTable
|
||||
description: A table for grouping different sequential intracellular recordings
|
||||
|
|
@ -840,7 +780,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(repetitions)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: repetitions
|
||||
|
|
@ -848,15 +787,19 @@ classes:
|
|||
name: sequential_recordings
|
||||
description: A reference to one or more rows in the SequentialRecordingsTable
|
||||
table.
|
||||
multivalued: false
|
||||
range: RepetitionsTable__sequential_recordings
|
||||
required: true
|
||||
multivalued: false
|
||||
sequential_recordings_index:
|
||||
name: sequential_recordings_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index dataset for the sequential_recordings column.
|
||||
multivalued: false
|
||||
range: RepetitionsTable__sequential_recordings_index
|
||||
range: VectorIndex
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
RepetitionsTable__sequential_recordings:
|
||||
name: RepetitionsTable__sequential_recordings
|
||||
|
|
@ -867,7 +810,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(sequential_recordings)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: sequential_recordings
|
||||
|
|
@ -877,18 +819,6 @@ classes:
|
|||
region applies to. This specializes the attribute inherited from DynamicTableRegion
|
||||
to fix the type of table that can be referenced here.
|
||||
range: SequentialRecordingsTable
|
||||
RepetitionsTable__sequential_recordings_index:
|
||||
name: RepetitionsTable__sequential_recordings_index
|
||||
description: Index dataset for the sequential_recordings column.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(sequential_recordings_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: sequential_recordings_index
|
||||
ExperimentalConditionsTable:
|
||||
name: ExperimentalConditionsTable
|
||||
description: A table for grouping different intracellular recording repetitions
|
||||
|
|
@ -898,22 +828,25 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(experimental_conditions)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: experimental_conditions
|
||||
repetitions:
|
||||
name: repetitions
|
||||
description: A reference to one or more rows in the RepetitionsTable table.
|
||||
multivalued: false
|
||||
range: ExperimentalConditionsTable__repetitions
|
||||
required: true
|
||||
multivalued: false
|
||||
repetitions_index:
|
||||
name: repetitions_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index dataset for the repetitions column.
|
||||
multivalued: false
|
||||
range: ExperimentalConditionsTable__repetitions_index
|
||||
range: VectorIndex
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ExperimentalConditionsTable__repetitions:
|
||||
name: ExperimentalConditionsTable__repetitions
|
||||
|
|
@ -923,7 +856,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(repetitions)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: repetitions
|
||||
|
|
@ -933,15 +865,3 @@ classes:
|
|||
applies to. This specializes the attribute inherited from DynamicTableRegion
|
||||
to fix the type of table that can be referenced here.
|
||||
range: RepetitionsTable
|
||||
ExperimentalConditionsTable__repetitions_index:
|
||||
name: ExperimentalConditionsTable__repetitions_index
|
||||
description: Index dataset for the repetitions column.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(repetitions_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: repetitions_index
|
||||
|
|
|
|||
|
|
@ -21,7 +21,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -32,7 +31,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -43,7 +41,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -59,16 +56,15 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Binary data representing images across frames. If data are stored
|
||||
in an external file, this should be an empty 3D array.
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -84,12 +80,12 @@ classes:
|
|||
dimension:
|
||||
name: dimension
|
||||
description: Number of pixels on x, y, (and z) axes.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: rank
|
||||
range: int32
|
||||
required: false
|
||||
multivalued: false
|
||||
external_file:
|
||||
name: external_file
|
||||
description: Paths to one or more external file(s). The field is only present
|
||||
|
|
@ -97,18 +93,18 @@ classes:
|
|||
in the file system as one or more image file(s). This field should NOT be
|
||||
used if the image is stored in another NWB file and that file is linked
|
||||
to this file.
|
||||
multivalued: false
|
||||
range: ImageSeries__external_file
|
||||
required: false
|
||||
multivalued: false
|
||||
format:
|
||||
name: format
|
||||
description: Format of image. If this is 'external', then the attribute 'external_file'
|
||||
contains the path information to the image files. If this is 'raw', then
|
||||
the raw (single-channel) binary data is stored in the 'data' dataset. If
|
||||
this attribute is not present, then the default format='raw' case is assumed.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ImageSeries__external_file:
|
||||
name: ImageSeries__external_file
|
||||
|
|
@ -120,7 +116,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(external_file)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: external_file
|
||||
|
|
@ -156,7 +151,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -171,21 +165,20 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
distance:
|
||||
name: distance
|
||||
description: Distance from camera/monitor to target/eye.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
field_of_view:
|
||||
name: field_of_view
|
||||
description: Width, height and depth of image, or imaged area, in meters.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -198,9 +191,9 @@ classes:
|
|||
data:
|
||||
name: data
|
||||
description: Images presented to subject, either grayscale or RGB
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -218,9 +211,9 @@ classes:
|
|||
name: orientation
|
||||
description: Description of image relative to some reference frame (e.g.,
|
||||
which way is up). Must also specify frame of reference.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
IndexSeries:
|
||||
name: IndexSeries
|
||||
|
|
@ -235,17 +228,16 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Index of the image (using zero-indexing) in the linked Images
|
||||
object.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: uint32
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -19,53 +19,67 @@ types:
|
|||
float32:
|
||||
name: float32
|
||||
typeof: float
|
||||
repr: np.float32
|
||||
float64:
|
||||
name: float64
|
||||
typeof: double
|
||||
repr: np.float64
|
||||
long:
|
||||
name: long
|
||||
typeof: integer
|
||||
repr: np.longlong
|
||||
int64:
|
||||
name: int64
|
||||
typeof: integer
|
||||
repr: np.int64
|
||||
int:
|
||||
name: int
|
||||
typeof: integer
|
||||
int32:
|
||||
name: int32
|
||||
typeof: integer
|
||||
repr: np.int32
|
||||
int16:
|
||||
name: int16
|
||||
typeof: integer
|
||||
repr: np.int16
|
||||
short:
|
||||
name: short
|
||||
typeof: integer
|
||||
repr: np.int16
|
||||
int8:
|
||||
name: int8
|
||||
typeof: integer
|
||||
repr: np.int8
|
||||
uint:
|
||||
name: uint
|
||||
typeof: integer
|
||||
repr: np.uint64
|
||||
minimum_value: 0
|
||||
uint32:
|
||||
name: uint32
|
||||
typeof: integer
|
||||
repr: np.uint32
|
||||
minimum_value: 0
|
||||
uint16:
|
||||
name: uint16
|
||||
typeof: integer
|
||||
repr: np.uint16
|
||||
minimum_value: 0
|
||||
uint8:
|
||||
name: uint8
|
||||
typeof: integer
|
||||
repr: np.uint8
|
||||
minimum_value: 0
|
||||
uint64:
|
||||
name: uint64
|
||||
typeof: integer
|
||||
repr: np.uint64
|
||||
minimum_value: 0
|
||||
numeric:
|
||||
name: numeric
|
||||
typeof: float
|
||||
repr: np.number
|
||||
text:
|
||||
name: text
|
||||
typeof: string
|
||||
|
|
@ -87,58 +101,7 @@ types:
|
|||
isodatetime:
|
||||
name: isodatetime
|
||||
typeof: datetime
|
||||
enums:
|
||||
FlatDType:
|
||||
name: FlatDType
|
||||
permissible_values:
|
||||
float:
|
||||
text: float
|
||||
float32:
|
||||
text: float32
|
||||
double:
|
||||
text: double
|
||||
float64:
|
||||
text: float64
|
||||
long:
|
||||
text: long
|
||||
int64:
|
||||
text: int64
|
||||
int:
|
||||
text: int
|
||||
int32:
|
||||
text: int32
|
||||
int16:
|
||||
text: int16
|
||||
short:
|
||||
text: short
|
||||
int8:
|
||||
text: int8
|
||||
uint:
|
||||
text: uint
|
||||
uint32:
|
||||
text: uint32
|
||||
uint16:
|
||||
text: uint16
|
||||
uint8:
|
||||
text: uint8
|
||||
uint64:
|
||||
text: uint64
|
||||
numeric:
|
||||
text: numeric
|
||||
text:
|
||||
text: text
|
||||
utf:
|
||||
text: utf
|
||||
utf8:
|
||||
text: utf8
|
||||
utf_8:
|
||||
text: utf_8
|
||||
ascii:
|
||||
text: ascii
|
||||
bool:
|
||||
text: bool
|
||||
isodatetime:
|
||||
text: isodatetime
|
||||
repr: np.datetime64
|
||||
classes:
|
||||
AnyType:
|
||||
name: AnyType
|
||||
|
|
|
|||
|
|
@ -30,33 +30,32 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Values of each feature at each time.
|
||||
multivalued: false
|
||||
range: AbstractFeatureSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
feature_units:
|
||||
name: feature_units
|
||||
description: Units of each feature.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_features
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
features:
|
||||
name: features
|
||||
description: Description of the features represented in TimeSeries::data.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_features
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
AbstractFeatureSeries__data:
|
||||
name: AbstractFeatureSeries__data
|
||||
|
|
@ -65,7 +64,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -96,18 +94,17 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Annotations made during an experiment.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
IntervalSeries:
|
||||
name: IntervalSeries
|
||||
|
|
@ -122,18 +119,17 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Use values >0 if interval started, <0 if interval ended.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: int8
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
DecompositionSeries:
|
||||
name: DecompositionSeries
|
||||
|
|
@ -142,35 +138,38 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Data decomposed into frequency bands.
|
||||
multivalued: false
|
||||
range: DecompositionSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
metric:
|
||||
name: metric
|
||||
description: The metric used, e.g. phase, amplitude, power.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
source_channels:
|
||||
name: source_channels
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: DynamicTableRegion pointer to the channels that this decomposition
|
||||
series was generated from.
|
||||
multivalued: false
|
||||
range: DecompositionSeries__source_channels
|
||||
range: DynamicTableRegion
|
||||
required: false
|
||||
multivalued: false
|
||||
bands:
|
||||
name: bands
|
||||
description: Table for describing the bands that this series was generated
|
||||
from. There should be one row in this table for each band.
|
||||
multivalued: false
|
||||
range: DecompositionSeries__bands
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
DecompositionSeries__data:
|
||||
name: DecompositionSeries__data
|
||||
|
|
@ -179,7 +178,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -197,19 +195,6 @@ classes:
|
|||
- alias: num_channels
|
||||
- alias: num_bands
|
||||
range: numeric
|
||||
DecompositionSeries__source_channels:
|
||||
name: DecompositionSeries__source_channels
|
||||
description: DynamicTableRegion pointer to the channels that this decomposition
|
||||
series was generated from.
|
||||
is_a: DynamicTableRegion
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(source_channels)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: source_channels
|
||||
DecompositionSeries__bands:
|
||||
name: DecompositionSeries__bands
|
||||
description: Table for describing the bands that this series was generated from.
|
||||
|
|
@ -219,20 +204,22 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(bands)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: bands
|
||||
band_name:
|
||||
name: band_name
|
||||
description: Name of the band, e.g. theta.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
band_limits:
|
||||
name: band_limits
|
||||
description: Low and high limit of each band in Hz. If it is a Gaussian filter,
|
||||
use 2 SD on either side of the center.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_bands
|
||||
|
|
@ -240,24 +227,25 @@ classes:
|
|||
exact_cardinality: 2
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
band_mean:
|
||||
name: band_mean
|
||||
description: The mean Gaussian filters, in Hz.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_bands
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
band_stdev:
|
||||
name: band_stdev
|
||||
description: The standard deviation of Gaussian filters, in Hz.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_bands
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
Units:
|
||||
name: Units
|
||||
description: Data about spiking units. Event times of observed units (e.g. cell,
|
||||
|
|
@ -267,31 +255,37 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(Units)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
spike_times_index:
|
||||
name: spike_times_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into the spike_times dataset.
|
||||
multivalued: false
|
||||
range: Units__spike_times_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
spike_times:
|
||||
name: spike_times
|
||||
description: Spike times for each unit in seconds.
|
||||
multivalued: false
|
||||
range: Units__spike_times
|
||||
required: false
|
||||
multivalued: false
|
||||
obs_intervals_index:
|
||||
name: obs_intervals_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into the obs_intervals dataset.
|
||||
multivalued: false
|
||||
range: Units__obs_intervals_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
obs_intervals:
|
||||
name: obs_intervals
|
||||
description: Observation intervals for each unit.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_intervals
|
||||
|
|
@ -299,29 +293,39 @@ classes:
|
|||
exact_cardinality: 2
|
||||
range: float64
|
||||
required: false
|
||||
multivalued: false
|
||||
electrodes_index:
|
||||
name: electrodes_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into electrodes.
|
||||
multivalued: false
|
||||
range: Units__electrodes_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
electrodes:
|
||||
name: electrodes
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Electrode that each spike unit came from, specified using a DynamicTableRegion.
|
||||
multivalued: false
|
||||
range: Units__electrodes
|
||||
range: DynamicTableRegion
|
||||
required: false
|
||||
multivalued: false
|
||||
electrode_group:
|
||||
name: electrode_group
|
||||
description: Electrode group that each spike unit came from.
|
||||
multivalued: true
|
||||
range: ElectrodeGroup
|
||||
required: false
|
||||
multivalued: true
|
||||
waveform_mean:
|
||||
name: waveform_mean
|
||||
description: Spike waveform mean for each spike unit.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -335,9 +339,9 @@ classes:
|
|||
waveform_sd:
|
||||
name: waveform_sd
|
||||
description: Spike waveform standard deviation for each spike unit.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -373,40 +377,36 @@ classes:
|
|||
order of the waveforms within a given unit x spike event should be in the
|
||||
same order as the electrodes referenced in the 'electrodes' column of this
|
||||
table. The number of samples for each waveform must be the same.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_waveforms
|
||||
- alias: num_samples
|
||||
range: numeric
|
||||
required: false
|
||||
multivalued: false
|
||||
waveforms_index:
|
||||
name: waveforms_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into the waveforms dataset. One value for every spike event.
|
||||
See 'waveforms' for more detail.
|
||||
multivalued: false
|
||||
range: Units__waveforms_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
waveforms_index_index:
|
||||
name: waveforms_index_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into the waveforms_index dataset. One value for every unit
|
||||
(row in the table). See 'waveforms' for more detail.
|
||||
multivalued: false
|
||||
range: Units__waveforms_index_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
Units__spike_times_index:
|
||||
name: Units__spike_times_index
|
||||
description: Index into the spike_times dataset.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(spike_times_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: spike_times_index
|
||||
Units__spike_times:
|
||||
name: Units__spike_times
|
||||
description: Spike times for each unit in seconds.
|
||||
|
|
@ -415,7 +415,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(spike_times)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: spike_times
|
||||
|
|
@ -427,65 +426,3 @@ classes:
|
|||
if the acquisition time series was smoothed/interpolated and it is possible
|
||||
for the spike time to be between samples.
|
||||
range: float64
|
||||
Units__obs_intervals_index:
|
||||
name: Units__obs_intervals_index
|
||||
description: Index into the obs_intervals dataset.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(obs_intervals_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: obs_intervals_index
|
||||
Units__electrodes_index:
|
||||
name: Units__electrodes_index
|
||||
description: Index into electrodes.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes_index
|
||||
Units__electrodes:
|
||||
name: Units__electrodes
|
||||
description: Electrode that each spike unit came from, specified using a DynamicTableRegion.
|
||||
is_a: DynamicTableRegion
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes
|
||||
Units__waveforms_index:
|
||||
name: Units__waveforms_index
|
||||
description: Index into the waveforms dataset. One value for every spike event.
|
||||
See 'waveforms' for more detail.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(waveforms_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: waveforms_index
|
||||
Units__waveforms_index_index:
|
||||
name: Units__waveforms_index_index
|
||||
description: Index into the waveforms_index dataset. One value for every unit
|
||||
(row in the table). See 'waveforms' for more detail.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(waveforms_index_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: waveforms_index_index
|
||||
|
|
|
|||
|
|
@ -21,18 +21,17 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Applied power for optogenetic stimulus, in watts.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
OptogeneticStimulusSite:
|
||||
name: OptogeneticStimulusSite
|
||||
|
|
@ -41,27 +40,26 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
name: description
|
||||
description: Description of stimulation site.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
excitation_lambda:
|
||||
name: excitation_lambda
|
||||
description: Excitation wavelength, in nm.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
location:
|
||||
name: location
|
||||
description: Location of the stimulation site. Specify the area, layer, comments
|
||||
on estimation of area/layer, stereotaxic coordinates if in vivo, etc. Use
|
||||
standard atlas names for anatomical regions when possible.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -23,7 +23,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
pmt_gain:
|
||||
|
|
@ -60,7 +59,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
pmt_gain:
|
||||
|
|
@ -76,9 +74,9 @@ classes:
|
|||
field_of_view:
|
||||
name: field_of_view
|
||||
description: Width, height and depth of image, or imaged area, in meters.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -97,15 +95,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Signals from ROIs.
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -116,25 +113,16 @@ classes:
|
|||
- alias: num_rois
|
||||
rois:
|
||||
name: rois
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: DynamicTableRegion referencing into an ROITable containing information
|
||||
on the ROIs stored in this timeseries.
|
||||
range: DynamicTableRegion
|
||||
required: true
|
||||
multivalued: false
|
||||
range: RoiResponseSeries__rois
|
||||
required: true
|
||||
tree_root: true
|
||||
RoiResponseSeries__rois:
|
||||
name: RoiResponseSeries__rois
|
||||
description: DynamicTableRegion referencing into an ROITable containing information
|
||||
on the ROIs stored in this timeseries.
|
||||
is_a: DynamicTableRegion
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(rois)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: rois
|
||||
DfOverF:
|
||||
name: DfOverF
|
||||
description: dF/F information about a region of interest (ROI). Storage hierarchy
|
||||
|
|
@ -191,56 +179,51 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
image_mask:
|
||||
name: image_mask
|
||||
description: ROI masks for each ROI. Each image mask is the size of the original
|
||||
imaging plane (or volume) and members of the ROI are finite non-zero.
|
||||
multivalued: false
|
||||
range: AnyType
|
||||
range: PlaneSegmentation__image_mask
|
||||
required: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
- alias: num_roi
|
||||
- alias: num_x
|
||||
- alias: num_y
|
||||
- array:
|
||||
dimensions:
|
||||
- alias: num_roi
|
||||
- alias: num_x
|
||||
- alias: num_y
|
||||
- alias: num_z
|
||||
multivalued: false
|
||||
pixel_mask_index:
|
||||
name: pixel_mask_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into pixel_mask.
|
||||
multivalued: false
|
||||
range: PlaneSegmentation__pixel_mask_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
pixel_mask:
|
||||
name: pixel_mask
|
||||
description: 'Pixel masks for each ROI: a list of indices and weights for
|
||||
the ROI. Pixel masks are concatenated and parsing of this dataset is maintained
|
||||
by the PlaneSegmentation'
|
||||
multivalued: false
|
||||
range: PlaneSegmentation__pixel_mask
|
||||
required: false
|
||||
multivalued: false
|
||||
voxel_mask_index:
|
||||
name: voxel_mask_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index into voxel_mask.
|
||||
multivalued: false
|
||||
range: PlaneSegmentation__voxel_mask_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
voxel_mask:
|
||||
name: voxel_mask
|
||||
description: 'Voxel masks for each ROI: a list of indices and weights for
|
||||
the ROI. Voxel masks are concatenated and parsing of this dataset is maintained
|
||||
by the PlaneSegmentation'
|
||||
multivalued: false
|
||||
range: PlaneSegmentation__voxel_mask
|
||||
required: false
|
||||
multivalued: false
|
||||
reference_images:
|
||||
name: reference_images
|
||||
description: Image stacks that the segmentation masks apply to.
|
||||
|
|
@ -250,18 +233,18 @@ classes:
|
|||
any_of:
|
||||
- range: ImageSeries
|
||||
tree_root: true
|
||||
PlaneSegmentation__pixel_mask_index:
|
||||
name: PlaneSegmentation__pixel_mask_index
|
||||
description: Index into pixel_mask.
|
||||
is_a: VectorIndex
|
||||
PlaneSegmentation__image_mask:
|
||||
name: PlaneSegmentation__image_mask
|
||||
description: ROI masks for each ROI. Each image mask is the size of the original
|
||||
imaging plane (or volume) and members of the ROI are finite non-zero.
|
||||
is_a: VectorData
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(pixel_mask_index)
|
||||
identifier: true
|
||||
ifabsent: string(image_mask)
|
||||
range: string
|
||||
required: true
|
||||
equals_string: pixel_mask_index
|
||||
equals_string: image_mask
|
||||
PlaneSegmentation__pixel_mask:
|
||||
name: PlaneSegmentation__pixel_mask
|
||||
description: 'Pixel masks for each ROI: a list of indices and weights for the
|
||||
|
|
@ -272,40 +255,27 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(pixel_mask)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: pixel_mask
|
||||
x:
|
||||
name: x
|
||||
description: Pixel x-coordinate.
|
||||
multivalued: false
|
||||
range: uint32
|
||||
required: false
|
||||
multivalued: false
|
||||
y:
|
||||
name: y
|
||||
description: Pixel y-coordinate.
|
||||
multivalued: false
|
||||
range: uint32
|
||||
required: false
|
||||
multivalued: false
|
||||
weight:
|
||||
name: weight
|
||||
description: Weight of the pixel.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
PlaneSegmentation__voxel_mask_index:
|
||||
name: PlaneSegmentation__voxel_mask_index
|
||||
description: Index into voxel_mask.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(voxel_mask_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: voxel_mask_index
|
||||
multivalued: false
|
||||
PlaneSegmentation__voxel_mask:
|
||||
name: PlaneSegmentation__voxel_mask
|
||||
description: 'Voxel masks for each ROI: a list of indices and weights for the
|
||||
|
|
@ -316,34 +286,33 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(voxel_mask)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: voxel_mask
|
||||
x:
|
||||
name: x
|
||||
description: Voxel x-coordinate.
|
||||
multivalued: false
|
||||
range: uint32
|
||||
required: false
|
||||
multivalued: false
|
||||
y:
|
||||
name: y
|
||||
description: Voxel y-coordinate.
|
||||
multivalued: false
|
||||
range: uint32
|
||||
required: false
|
||||
multivalued: false
|
||||
z:
|
||||
name: z
|
||||
description: Voxel z-coordinate.
|
||||
multivalued: false
|
||||
range: uint32
|
||||
required: false
|
||||
multivalued: false
|
||||
weight:
|
||||
name: weight
|
||||
description: Weight of the voxel.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
ImagingPlane:
|
||||
name: ImagingPlane
|
||||
description: An imaging plane and its metadata.
|
||||
|
|
@ -364,21 +333,20 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
name: description
|
||||
description: Description or other notes about the channel.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
emission_lambda:
|
||||
name: emission_lambda
|
||||
description: Emission wavelength for channel, in nm.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
MotionCorrection:
|
||||
name: MotionCorrection
|
||||
|
|
@ -402,20 +370,19 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
corrected:
|
||||
name: corrected
|
||||
description: Image stack with frames shifted to the common coordinates.
|
||||
multivalued: false
|
||||
range: ImageSeries
|
||||
required: true
|
||||
multivalued: false
|
||||
xy_translation:
|
||||
name: xy_translation
|
||||
description: Stores the x,y delta necessary to align each frame to the common
|
||||
coordinates, for example, to align each frame to a reference image.
|
||||
multivalued: false
|
||||
range: TimeSeries
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -29,68 +29,67 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(ImagingRetinotopy)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
axis_1_phase_map:
|
||||
name: axis_1_phase_map
|
||||
description: Phase response to stimulus on the first measured axis.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__axis_1_phase_map
|
||||
required: true
|
||||
multivalued: false
|
||||
axis_1_power_map:
|
||||
name: axis_1_power_map
|
||||
description: Power response on the first measured axis. Response is scaled
|
||||
so 0.0 is no power in the response and 1.0 is maximum relative power.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__axis_1_power_map
|
||||
required: false
|
||||
multivalued: false
|
||||
axis_2_phase_map:
|
||||
name: axis_2_phase_map
|
||||
description: Phase response to stimulus on the second measured axis.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__axis_2_phase_map
|
||||
required: true
|
||||
multivalued: false
|
||||
axis_2_power_map:
|
||||
name: axis_2_power_map
|
||||
description: Power response on the second measured axis. Response is scaled
|
||||
so 0.0 is no power in the response and 1.0 is maximum relative power.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__axis_2_power_map
|
||||
required: false
|
||||
multivalued: false
|
||||
axis_descriptions:
|
||||
name: axis_descriptions
|
||||
description: Two-element array describing the contents of the two response
|
||||
axis fields. Description should be something like ['altitude', 'azimuth']
|
||||
or '['radius', 'theta'].
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: axis_1_axis_2
|
||||
exact_cardinality: 2
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
focal_depth_image:
|
||||
name: focal_depth_image
|
||||
description: 'Gray-scale image taken with same settings/parameters (e.g.,
|
||||
focal depth, wavelength) as data collection. Array format: [rows][columns].'
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__focal_depth_image
|
||||
required: false
|
||||
multivalued: false
|
||||
sign_map:
|
||||
name: sign_map
|
||||
description: Sine of the angle between the direction of the gradient in axis_1
|
||||
and axis_2.
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__sign_map
|
||||
required: false
|
||||
multivalued: false
|
||||
vasculature_image:
|
||||
name: vasculature_image
|
||||
description: 'Gray-scale anatomical image of cortical surface. Array structure:
|
||||
[rows][columns]'
|
||||
multivalued: false
|
||||
range: ImagingRetinotopy__vasculature_image
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ImagingRetinotopy__axis_1_phase_map:
|
||||
name: ImagingRetinotopy__axis_1_phase_map
|
||||
|
|
@ -99,7 +98,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(axis_1_phase_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: axis_1_phase_map
|
||||
|
|
@ -131,7 +129,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(axis_1_power_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: axis_1_power_map
|
||||
|
|
@ -162,7 +159,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(axis_2_phase_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: axis_2_phase_map
|
||||
|
|
@ -194,7 +190,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(axis_2_power_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: axis_2_power_map
|
||||
|
|
@ -226,7 +221,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(focal_depth_image)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: focal_depth_image
|
||||
|
|
@ -267,7 +261,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(sign_map)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: sign_map
|
||||
|
|
@ -295,7 +288,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(vasculature_image)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: vasculature_image
|
||||
|
|
|
|||
|
|
@ -21,7 +21,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -35,7 +34,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(timeseries)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
idx_start:
|
||||
|
|
@ -43,22 +41,22 @@ classes:
|
|||
description: Start index into the TimeSeries 'data' and 'timestamp' datasets
|
||||
of the referenced TimeSeries. The first dimension of those arrays is always
|
||||
time.
|
||||
multivalued: false
|
||||
range: int32
|
||||
required: true
|
||||
multivalued: false
|
||||
count:
|
||||
name: count
|
||||
description: Number of data samples available in this time series, during
|
||||
this epoch
|
||||
multivalued: false
|
||||
range: int32
|
||||
required: true
|
||||
multivalued: false
|
||||
timeseries:
|
||||
name: timeseries
|
||||
description: The TimeSeries that this index applies to
|
||||
multivalued: false
|
||||
range: TimeSeries
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
Image:
|
||||
name: Image
|
||||
|
|
@ -69,7 +67,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
resolution:
|
||||
|
|
@ -108,15 +105,8 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
image:
|
||||
name: image
|
||||
description: Ordered dataset of references to Image objects.
|
||||
multivalued: true
|
||||
range: Image
|
||||
required: true
|
||||
tree_root: true
|
||||
NWBContainer:
|
||||
name: NWBContainer
|
||||
|
|
@ -126,7 +116,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -138,7 +127,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -149,7 +137,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -168,49 +155,49 @@ classes:
|
|||
dimension should always represent time. This can also be used to store binary
|
||||
data (e.g., image frames). This can also be a link to data stored in an
|
||||
external file.
|
||||
multivalued: false
|
||||
range: TimeSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
starting_time:
|
||||
name: starting_time
|
||||
description: Timestamp of the first sample in seconds. When timestamps are
|
||||
uniformly spaced, the timestamp of the first sample can be specified and
|
||||
all subsequent ones calculated from the sampling rate attribute.
|
||||
multivalued: false
|
||||
range: TimeSeries__starting_time
|
||||
required: false
|
||||
multivalued: false
|
||||
timestamps:
|
||||
name: timestamps
|
||||
description: Timestamps for samples stored in data, in seconds, relative to
|
||||
the common experiment master-clock stored in NWBFile.timestamps_reference_time.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: float64
|
||||
required: false
|
||||
multivalued: false
|
||||
control:
|
||||
name: control
|
||||
description: Numerical labels that apply to each time point in data for the
|
||||
purpose of querying and slicing data by these values. If present, the length
|
||||
of this array should be the same size as the first dimension of data.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: uint8
|
||||
required: false
|
||||
multivalued: false
|
||||
control_description:
|
||||
name: control_description
|
||||
description: Description of each control value. Must be present if control
|
||||
is present. If present, control_description[0] should describe time points
|
||||
where control == 0.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_control_values
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
sync:
|
||||
name: sync
|
||||
description: Lab-specific time and sync information as provided directly from
|
||||
|
|
@ -219,9 +206,9 @@ classes:
|
|||
This group will usually only be populated in TimeSeries that are stored
|
||||
external to the NWB file, in files storing raw data. Once timestamp data
|
||||
is calculated, the contents of 'sync' are mostly for archival purposes.
|
||||
multivalued: false
|
||||
range: TimeSeries__sync
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
TimeSeries__data:
|
||||
name: TimeSeries__data
|
||||
|
|
@ -232,7 +219,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -312,7 +298,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(starting_time)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: starting_time
|
||||
|
|
@ -340,7 +325,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(sync)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: sync
|
||||
|
|
@ -368,7 +352,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(Images)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -378,30 +361,20 @@ classes:
|
|||
image:
|
||||
name: image
|
||||
description: Images stored in this collection.
|
||||
multivalued: true
|
||||
range: Image
|
||||
required: true
|
||||
multivalued: true
|
||||
order_of_images:
|
||||
name: order_of_images
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Ordered dataset of references to Image objects stored in the
|
||||
parent group. Each Image object in the Images group should be stored once
|
||||
and only once, so the dataset should have the same length as the number
|
||||
of images.
|
||||
multivalued: false
|
||||
range: Images__order_of_images
|
||||
range: ImageReferences
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
Images__order_of_images:
|
||||
name: Images__order_of_images
|
||||
description: Ordered dataset of references to Image objects stored in the parent
|
||||
group. Each Image object in the Images group should be stored once and only
|
||||
once, so the dataset should have the same length as the number of images.
|
||||
is_a: ImageReferences
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(order_of_images)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: order_of_images
|
||||
|
|
|
|||
|
|
@ -29,22 +29,21 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: 1-D or 2-D array storing position or direction relative to some
|
||||
reference frame.
|
||||
multivalued: false
|
||||
range: SpatialSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
reference_frame:
|
||||
name: reference_frame
|
||||
description: Description defining what exactly 'straight-ahead' means.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
SpatialSeries__data:
|
||||
name: SpatialSeries__data
|
||||
|
|
@ -54,7 +53,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
|
|||
|
|
@ -21,7 +21,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
|
|||
|
|
@ -25,7 +25,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
filtering:
|
||||
|
|
@ -41,9 +40,9 @@ classes:
|
|||
data:
|
||||
name: data
|
||||
description: Recorded voltage data.
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -59,11 +58,15 @@ classes:
|
|||
- alias: num_samples
|
||||
electrodes:
|
||||
name: electrodes
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: DynamicTableRegion pointer to the electrodes that this time series
|
||||
was generated from.
|
||||
multivalued: false
|
||||
range: ElectricalSeries__electrodes
|
||||
range: DynamicTableRegion
|
||||
required: true
|
||||
multivalued: false
|
||||
channel_conversion:
|
||||
name: channel_conversion
|
||||
description: Channel-specific conversion factor. Multiply the data in the
|
||||
|
|
@ -75,26 +78,13 @@ classes:
|
|||
as native values generated by data acquisition systems. If this dataset
|
||||
is not present, then there is no channel-specific conversion factor, i.e.
|
||||
it is 1 for all channels.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_channels
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ElectricalSeries__electrodes:
|
||||
name: ElectricalSeries__electrodes
|
||||
description: DynamicTableRegion pointer to the electrodes that this time series
|
||||
was generated from.
|
||||
is_a: DynamicTableRegion
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes
|
||||
SpikeEventSeries:
|
||||
name: SpikeEventSeries
|
||||
description: 'Stores snapshots/snippets of recorded spike events (i.e., threshold
|
||||
|
|
@ -109,15 +99,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Spike waveforms.
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -134,12 +123,12 @@ classes:
|
|||
the common experiment master-clock stored in NWBFile.timestamps_reference_time.
|
||||
Timestamps are required for the events. Unlike for TimeSeries, timestamps
|
||||
are required for SpikeEventSeries and are thus re-specified here.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: float64
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
FeatureExtraction:
|
||||
name: FeatureExtraction
|
||||
|
|
@ -150,23 +139,21 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(FeatureExtraction)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
name: description
|
||||
description: Description of features (eg, ''PC1'') for each of the extracted
|
||||
features.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_features
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
features:
|
||||
name: features
|
||||
description: Multi-dimensional array of features extracted from each event.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
|
|
@ -174,36 +161,28 @@ classes:
|
|||
- alias: num_features
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
times:
|
||||
name: times
|
||||
description: Times of events that features correspond to (can be a link).
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: float64
|
||||
required: true
|
||||
multivalued: false
|
||||
electrodes:
|
||||
name: electrodes
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: DynamicTableRegion pointer to the electrodes that this time series
|
||||
was generated from.
|
||||
range: DynamicTableRegion
|
||||
required: true
|
||||
multivalued: false
|
||||
range: FeatureExtraction__electrodes
|
||||
required: true
|
||||
tree_root: true
|
||||
FeatureExtraction__electrodes:
|
||||
name: FeatureExtraction__electrodes
|
||||
description: DynamicTableRegion pointer to the electrodes that this time series
|
||||
was generated from.
|
||||
is_a: DynamicTableRegion
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes
|
||||
EventDetection:
|
||||
name: EventDetection
|
||||
description: Detected spike events from voltage trace(s).
|
||||
|
|
@ -212,37 +191,36 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(EventDetection)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
detection_method:
|
||||
name: detection_method
|
||||
description: Description of how events were detected, such as voltage threshold,
|
||||
or dV/dT threshold, as well as relevant values.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
source_idx:
|
||||
name: source_idx
|
||||
description: Indices (zero-based) into source ElectricalSeries::data array
|
||||
corresponding to time of event. ''description'' should define what is meant
|
||||
by time of event (e.g., .25 ms before action potential peak, zero-crossing
|
||||
time, etc). The index points to each event from the raw data.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: int32
|
||||
required: true
|
||||
multivalued: false
|
||||
times:
|
||||
name: times
|
||||
description: Timestamps of events, in seconds.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: float64
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
EventWaveform:
|
||||
name: EventWaveform
|
||||
|
|
@ -304,7 +282,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -320,9 +297,9 @@ classes:
|
|||
position:
|
||||
name: position
|
||||
description: stereotaxic or common framework coordinates
|
||||
multivalued: false
|
||||
range: ElectrodeGroup__position
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ElectrodeGroup__position:
|
||||
name: ElectrodeGroup__position
|
||||
|
|
@ -331,28 +308,27 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(position)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: position
|
||||
x:
|
||||
name: x
|
||||
description: x coordinate
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
y:
|
||||
name: y
|
||||
description: y coordinate
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
z:
|
||||
name: z
|
||||
description: z coordinate
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
ClusterWaveforms:
|
||||
name: ClusterWaveforms
|
||||
description: DEPRECATED The mean waveform shape, including standard deviation,
|
||||
|
|
@ -366,39 +342,38 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(ClusterWaveforms)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
waveform_filtering:
|
||||
name: waveform_filtering
|
||||
description: Filtering applied to data before generating mean/sd
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
waveform_mean:
|
||||
name: waveform_mean
|
||||
description: The mean waveform for each cluster, using the same indices for
|
||||
each wave as cluster numbers in the associated Clustering module (i.e, cluster
|
||||
3 is in array slot [3]). Waveforms corresponding to gaps in cluster sequence
|
||||
should be empty (e.g., zero- filled)
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_clusters
|
||||
- alias: num_samples
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
waveform_sd:
|
||||
name: waveform_sd
|
||||
description: Stdev of waveforms for each cluster, using the same indices as
|
||||
in mean
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_clusters
|
||||
- alias: num_samples
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
Clustering:
|
||||
name: Clustering
|
||||
|
|
@ -409,43 +384,42 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(Clustering)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
name: description
|
||||
description: Description of clusters or clustering, (e.g. cluster 0 is noise,
|
||||
clusters curated using Klusters, etc)
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
num:
|
||||
name: num
|
||||
description: Cluster number of each event
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: int32
|
||||
required: true
|
||||
multivalued: false
|
||||
peak_over_rms:
|
||||
name: peak_over_rms
|
||||
description: Maximum ratio of waveform peak to RMS on any channel in the cluster
|
||||
(provides a basic clustering metric).
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_clusters
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
times:
|
||||
name: times
|
||||
description: Times of clustered events, in seconds. This may be a link to
|
||||
times field in associated FeatureExtraction module.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_events
|
||||
range: float64
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -22,76 +22,63 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
start_time:
|
||||
name: start_time
|
||||
description: Start time of epoch, in seconds.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
stop_time:
|
||||
name: stop_time
|
||||
description: Stop time of epoch, in seconds.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
tags:
|
||||
name: tags
|
||||
description: User-defined tags that identify or categorize events.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tags_index:
|
||||
name: tags_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index for tags.
|
||||
multivalued: false
|
||||
range: TimeIntervals__tags_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
timeseries:
|
||||
name: timeseries
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: An index into a TimeSeries object.
|
||||
multivalued: false
|
||||
range: TimeIntervals__timeseries
|
||||
range: TimeSeriesReferenceVectorData
|
||||
required: false
|
||||
multivalued: false
|
||||
timeseries_index:
|
||||
name: timeseries_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index for timeseries.
|
||||
multivalued: false
|
||||
range: TimeIntervals__timeseries_index
|
||||
range: VectorIndex
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
TimeIntervals__tags_index:
|
||||
name: TimeIntervals__tags_index
|
||||
description: Index for tags.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(tags_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: tags_index
|
||||
TimeIntervals__timeseries:
|
||||
name: TimeIntervals__timeseries
|
||||
description: An index into a TimeSeries object.
|
||||
is_a: TimeSeriesReferenceVectorData
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(timeseries)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: timeseries
|
||||
TimeIntervals__timeseries_index:
|
||||
name: TimeIntervals__timeseries_index
|
||||
description: Index for timeseries.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(timeseries_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: timeseries_index
|
||||
|
|
|
|||
|
|
@ -28,7 +28,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
notes:
|
||||
|
|
@ -45,7 +44,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(root)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: root
|
||||
|
|
@ -63,36 +61,36 @@ classes:
|
|||
The file can be created after the experiment was run, so this may differ
|
||||
from the experiment start time. Each modification to the nwb file adds a
|
||||
new entry to the array.'
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_modifications
|
||||
range: isodatetime
|
||||
required: true
|
||||
multivalued: false
|
||||
identifier:
|
||||
name: identifier
|
||||
description: A unique text identifier for the file. For example, concatenated
|
||||
lab name, file creation date/time and experimentalist, or a hash of these
|
||||
and/or other values. The goal is that the string should be unique to all
|
||||
other files.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
session_description:
|
||||
name: session_description
|
||||
description: A description of the experimental session and data in the file.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
session_start_time:
|
||||
name: session_start_time
|
||||
description: 'Date and time of the experiment/session start. The date is stored
|
||||
in UTC with local timezone offset as ISO 8601 extended formatted string:
|
||||
2018-09-28T14:43:54.123+02:00. Dates stored in UTC end in "Z" with no timezone
|
||||
offset. Date accuracy is up to milliseconds.'
|
||||
multivalued: false
|
||||
range: isodatetime
|
||||
required: true
|
||||
multivalued: false
|
||||
timestamps_reference_time:
|
||||
name: timestamps_reference_time
|
||||
description: 'Date and time corresponding to time zero of all timestamps.
|
||||
|
|
@ -100,9 +98,9 @@ classes:
|
|||
formatted string: 2018-09-28T14:43:54.123+02:00. Dates stored in UTC end
|
||||
in "Z" with no timezone offset. Date accuracy is up to milliseconds. All
|
||||
times stored in the file use this time as reference (i.e., time zero).'
|
||||
multivalued: false
|
||||
range: isodatetime
|
||||
required: true
|
||||
multivalued: false
|
||||
acquisition:
|
||||
name: acquisition
|
||||
description: Data streams recorded from the system, including ephys, ophys,
|
||||
|
|
@ -179,9 +177,9 @@ classes:
|
|||
an experiment. The stimulus group is organized so that one version of template
|
||||
stimuli can be stored and these be used multiple times. These templates
|
||||
can exist in the present file or can be linked to a remote library file.
|
||||
multivalued: false
|
||||
range: NWBFile__stimulus
|
||||
required: true
|
||||
multivalued: false
|
||||
general:
|
||||
name: general
|
||||
description: Experimental metadata, including protocol, notes and description
|
||||
|
|
@ -199,9 +197,9 @@ classes:
|
|||
datasets. All entries in the below table are to be included when data is
|
||||
present. Unused groups (e.g., intracellular_ephys in an optophysiology experiment)
|
||||
should not be created unless there is data to store within them.
|
||||
multivalued: false
|
||||
range: NWBFile__general
|
||||
required: true
|
||||
multivalued: false
|
||||
intervals:
|
||||
name: intervals
|
||||
description: Experimental intervals, whether that be logically distinct sub-experiments
|
||||
|
|
@ -219,9 +217,9 @@ classes:
|
|||
units:
|
||||
name: units
|
||||
description: Data about sorted spike units.
|
||||
multivalued: false
|
||||
range: Units
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
NWBFile__stimulus:
|
||||
name: NWBFile__stimulus
|
||||
|
|
@ -241,7 +239,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(stimulus)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: stimulus
|
||||
|
|
@ -287,129 +284,128 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(general)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: general
|
||||
data_collection:
|
||||
name: data_collection
|
||||
description: Notes about data collection and analysis.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
experiment_description:
|
||||
name: experiment_description
|
||||
description: General description of the experiment.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
experimenter:
|
||||
name: experimenter
|
||||
description: Name of person(s) who performed the experiment. Can also specify
|
||||
roles of different people involved.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_experimenters
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
institution:
|
||||
name: institution
|
||||
description: Institution(s) where experiment was performed.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
keywords:
|
||||
name: keywords
|
||||
description: Terms to search over.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_keywords
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
lab:
|
||||
name: lab
|
||||
description: Laboratory where experiment was performed.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
notes:
|
||||
name: notes
|
||||
description: Notes about the experiment.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
pharmacology:
|
||||
name: pharmacology
|
||||
description: Description of drugs used, including how and when they were administered.
|
||||
Anesthesia(s), painkiller(s), etc., plus dosage, concentration, etc.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
protocol:
|
||||
name: protocol
|
||||
description: Experimental protocol, if applicable. e.g., include IACUC protocol
|
||||
number.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
related_publications:
|
||||
name: related_publications
|
||||
description: Publication information. PMID, DOI, URL, etc.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_publications
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
session_id:
|
||||
name: session_id
|
||||
description: Lab-specific ID for the session.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
slices:
|
||||
name: slices
|
||||
description: Description of slices, including information about preparation
|
||||
thickness, orientation, temperature, and bath solution.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
source_script:
|
||||
name: source_script
|
||||
description: Script file or link to public source code used to create this
|
||||
NWB file.
|
||||
multivalued: false
|
||||
range: NWBFile__general__source_script
|
||||
required: false
|
||||
multivalued: false
|
||||
stimulus:
|
||||
name: stimulus
|
||||
description: Notes about stimuli, such as how and where they were presented.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
surgery:
|
||||
name: surgery
|
||||
description: Narrative description about surgery/surgeries, including date(s)
|
||||
and who performed surgery.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
virus:
|
||||
name: virus
|
||||
description: Information about virus(es) used in experiments, including virus
|
||||
ID, source, date made, injection location, volume, etc.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
lab_meta_data:
|
||||
name: lab_meta_data
|
||||
description: Place-holder than can be extended so that lab-specific meta-data
|
||||
can be placed in /general.
|
||||
multivalued: true
|
||||
range: LabMetaData
|
||||
required: false
|
||||
multivalued: true
|
||||
devices:
|
||||
name: devices
|
||||
description: Description of hardware devices used during experiment, e.g.,
|
||||
|
|
@ -423,21 +419,21 @@ classes:
|
|||
name: subject
|
||||
description: Information about the animal or person from which the data was
|
||||
measured.
|
||||
multivalued: false
|
||||
range: Subject
|
||||
required: false
|
||||
multivalued: false
|
||||
extracellular_ephys:
|
||||
name: extracellular_ephys
|
||||
description: Metadata related to extracellular electrophysiology.
|
||||
multivalued: false
|
||||
range: NWBFile__general__extracellular_ephys
|
||||
required: false
|
||||
multivalued: false
|
||||
intracellular_ephys:
|
||||
name: intracellular_ephys
|
||||
description: Metadata related to intracellular electrophysiology.
|
||||
multivalued: false
|
||||
range: NWBFile__general__intracellular_ephys
|
||||
required: false
|
||||
multivalued: false
|
||||
optogenetics:
|
||||
name: optogenetics
|
||||
description: Metadata describing optogenetic stimuluation.
|
||||
|
|
@ -462,7 +458,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(source_script)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: source_script
|
||||
|
|
@ -481,22 +476,21 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(extracellular_ephys)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: extracellular_ephys
|
||||
electrode_group:
|
||||
name: electrode_group
|
||||
description: Physical group of electrodes.
|
||||
multivalued: true
|
||||
range: ElectrodeGroup
|
||||
required: false
|
||||
multivalued: true
|
||||
electrodes:
|
||||
name: electrodes
|
||||
description: A table of all electrodes (i.e. channels) used for recording.
|
||||
multivalued: false
|
||||
range: NWBFile__general__extracellular_ephys__electrodes
|
||||
required: false
|
||||
multivalued: false
|
||||
NWBFile__general__extracellular_ephys__electrodes:
|
||||
name: NWBFile__general__extracellular_ephys__electrodes
|
||||
description: A table of all electrodes (i.e. channels) used for recording.
|
||||
|
|
@ -505,75 +499,119 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(electrodes)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: electrodes
|
||||
x:
|
||||
name: x
|
||||
description: x coordinate of the channel location in the brain (+x is posterior).
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
y:
|
||||
name: y
|
||||
description: y coordinate of the channel location in the brain (+y is inferior).
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
z:
|
||||
name: z
|
||||
description: z coordinate of the channel location in the brain (+z is right).
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
imp:
|
||||
name: imp
|
||||
description: Impedance of the channel, in ohms.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
location:
|
||||
name: location
|
||||
description: Location of the electrode (channel). Specify the area, layer,
|
||||
comments on estimation of area/layer, stereotaxic coordinates if in vivo,
|
||||
etc. Use standard atlas names for anatomical regions when possible.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
filtering:
|
||||
name: filtering
|
||||
description: Description of hardware filtering, including the filter name
|
||||
and frequency cutoffs.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
group:
|
||||
name: group
|
||||
description: Reference to the ElectrodeGroup this electrode is a part of.
|
||||
multivalued: true
|
||||
range: ElectrodeGroup
|
||||
required: true
|
||||
multivalued: true
|
||||
group_name:
|
||||
name: group_name
|
||||
description: Name of the ElectrodeGroup this electrode is a part of.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
rel_x:
|
||||
name: rel_x
|
||||
description: x coordinate in electrode group
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
rel_y:
|
||||
name: rel_y
|
||||
description: y coordinate in electrode group
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
rel_z:
|
||||
name: rel_z
|
||||
description: z coordinate in electrode group
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
reference:
|
||||
name: reference
|
||||
description: Description of the reference electrode and/or reference scheme
|
||||
used for this electrode, e.g., "stainless steel skull screw" or "online
|
||||
common average referencing".
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
NWBFile__general__intracellular_ephys:
|
||||
name: NWBFile__general__intracellular_ephys
|
||||
description: Metadata related to intracellular electrophysiology.
|
||||
|
|
@ -581,7 +619,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(intracellular_ephys)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: intracellular_ephys
|
||||
|
|
@ -591,24 +628,24 @@ classes:
|
|||
of filtering used. Includes filtering type and parameters, frequency fall-off,
|
||||
etc. If this changes between TimeSeries, filter description should be stored
|
||||
as a text attribute for each TimeSeries.'
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
intracellular_electrode:
|
||||
name: intracellular_electrode
|
||||
description: An intracellular electrode.
|
||||
multivalued: true
|
||||
range: IntracellularElectrode
|
||||
required: false
|
||||
multivalued: true
|
||||
sweep_table:
|
||||
name: sweep_table
|
||||
description: '[DEPRECATED] Table used to group different PatchClampSeries.
|
||||
SweepTable is being replaced by IntracellularRecordingsTable and SimultaneousRecordingsTable
|
||||
tables. Additional SequentialRecordingsTable, RepetitionsTable and ExperimentalConditions
|
||||
tables provide enhanced support for experiment metadata.'
|
||||
multivalued: false
|
||||
range: SweepTable
|
||||
required: false
|
||||
multivalued: false
|
||||
intracellular_recordings:
|
||||
name: intracellular_recordings
|
||||
description: A table to group together a stimulus and response from a single
|
||||
|
|
@ -623,42 +660,42 @@ classes:
|
|||
PatchClampSeries. However, the use of AD/DA channels that are not associated
|
||||
to an electrode is also common in intracellular electrophysiology, in which
|
||||
case other TimeSeries may be used.
|
||||
multivalued: false
|
||||
range: IntracellularRecordingsTable
|
||||
required: false
|
||||
multivalued: false
|
||||
simultaneous_recordings:
|
||||
name: simultaneous_recordings
|
||||
description: A table for grouping different intracellular recordings from
|
||||
the IntracellularRecordingsTable table together that were recorded simultaneously
|
||||
from different electrodes
|
||||
multivalued: false
|
||||
range: SimultaneousRecordingsTable
|
||||
required: false
|
||||
multivalued: false
|
||||
sequential_recordings:
|
||||
name: sequential_recordings
|
||||
description: A table for grouping different sequential recordings from the
|
||||
SimultaneousRecordingsTable table together. This is typically used to group
|
||||
together sequential recordings where the a sequence of stimuli of the same
|
||||
type with varying parameters have been presented in a sequence.
|
||||
multivalued: false
|
||||
range: SequentialRecordingsTable
|
||||
required: false
|
||||
multivalued: false
|
||||
repetitions:
|
||||
name: repetitions
|
||||
description: A table for grouping different sequential intracellular recordings
|
||||
together. With each SequentialRecording typically representing a particular
|
||||
type of stimulus, the RepetitionsTable table is typically used to group
|
||||
sets of stimuli applied in sequence.
|
||||
multivalued: false
|
||||
range: RepetitionsTable
|
||||
required: false
|
||||
multivalued: false
|
||||
experimental_conditions:
|
||||
name: experimental_conditions
|
||||
description: A table for grouping different intracellular recording repetitions
|
||||
together that belong to the same experimental experimental_conditions.
|
||||
multivalued: false
|
||||
range: ExperimentalConditionsTable
|
||||
required: false
|
||||
multivalued: false
|
||||
LabMetaData:
|
||||
name: LabMetaData
|
||||
description: Lab-specific meta-data.
|
||||
|
|
@ -666,7 +703,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -677,65 +713,64 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
age:
|
||||
name: age
|
||||
description: Age of subject. Can be supplied instead of 'date_of_birth'.
|
||||
multivalued: false
|
||||
range: Subject__age
|
||||
required: false
|
||||
multivalued: false
|
||||
date_of_birth:
|
||||
name: date_of_birth
|
||||
description: Date of birth of subject. Can be supplied instead of 'age'.
|
||||
multivalued: false
|
||||
range: isodatetime
|
||||
required: false
|
||||
multivalued: false
|
||||
description:
|
||||
name: description
|
||||
description: Description of subject and where subject came from (e.g., breeder,
|
||||
if animal).
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
genotype:
|
||||
name: genotype
|
||||
description: Genetic strain. If absent, assume Wild Type (WT).
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
sex:
|
||||
name: sex
|
||||
description: Gender of subject.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
species:
|
||||
name: species
|
||||
description: Species of subject.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
strain:
|
||||
name: strain
|
||||
description: Strain of subject.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
subject_id:
|
||||
name: subject_id
|
||||
description: ID of animal/person used/participating in experiment (lab convention).
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
weight:
|
||||
name: weight
|
||||
description: Weight at time of experiment, at time of surgery and at other
|
||||
important times.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
Subject__age:
|
||||
name: Subject__age
|
||||
|
|
@ -744,7 +779,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(age)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: age
|
||||
|
|
|
|||
|
|
@ -23,7 +23,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
stimulus_description:
|
||||
|
|
@ -37,16 +36,16 @@ classes:
|
|||
data:
|
||||
name: data
|
||||
description: Recorded voltage or current.
|
||||
multivalued: false
|
||||
range: PatchClampSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
gain:
|
||||
name: gain
|
||||
description: Gain of the recording, in units Volt/Amp (v-clamp) or Volt/Volt
|
||||
(c-clamp).
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
PatchClampSeries__data:
|
||||
name: PatchClampSeries__data
|
||||
|
|
@ -55,7 +54,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -80,33 +78,32 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Recorded voltage.
|
||||
multivalued: false
|
||||
range: CurrentClampSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
bias_current:
|
||||
name: bias_current
|
||||
description: Bias current, in amps.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
bridge_balance:
|
||||
name: bridge_balance
|
||||
description: Bridge balance, in ohms.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
capacitance_compensation:
|
||||
name: capacitance_compensation
|
||||
description: Capacitance compensation, in farads.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
CurrentClampSeries__data:
|
||||
name: CurrentClampSeries__data
|
||||
|
|
@ -115,7 +112,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -140,7 +136,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
stimulus_description:
|
||||
|
|
@ -151,21 +146,21 @@ classes:
|
|||
bias_current:
|
||||
name: bias_current
|
||||
description: Bias current, in amps, fixed to 0.0.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
bridge_balance:
|
||||
name: bridge_balance
|
||||
description: Bridge balance, in ohms, fixed to 0.0.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
capacitance_compensation:
|
||||
name: capacitance_compensation
|
||||
description: Capacitance compensation, in farads, fixed to 0.0.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
CurrentClampStimulusSeries:
|
||||
name: CurrentClampStimulusSeries
|
||||
|
|
@ -174,15 +169,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Stimulus current applied.
|
||||
multivalued: false
|
||||
range: CurrentClampStimulusSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
CurrentClampStimulusSeries__data:
|
||||
name: CurrentClampStimulusSeries__data
|
||||
|
|
@ -191,7 +185,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -215,57 +208,56 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Recorded current.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
capacitance_fast:
|
||||
name: capacitance_fast
|
||||
description: Fast capacitance, in farads.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__capacitance_fast
|
||||
required: false
|
||||
multivalued: false
|
||||
capacitance_slow:
|
||||
name: capacitance_slow
|
||||
description: Slow capacitance, in farads.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__capacitance_slow
|
||||
required: false
|
||||
multivalued: false
|
||||
resistance_comp_bandwidth:
|
||||
name: resistance_comp_bandwidth
|
||||
description: Resistance compensation bandwidth, in hertz.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__resistance_comp_bandwidth
|
||||
required: false
|
||||
multivalued: false
|
||||
resistance_comp_correction:
|
||||
name: resistance_comp_correction
|
||||
description: Resistance compensation correction, in percent.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__resistance_comp_correction
|
||||
required: false
|
||||
multivalued: false
|
||||
resistance_comp_prediction:
|
||||
name: resistance_comp_prediction
|
||||
description: Resistance compensation prediction, in percent.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__resistance_comp_prediction
|
||||
required: false
|
||||
multivalued: false
|
||||
whole_cell_capacitance_comp:
|
||||
name: whole_cell_capacitance_comp
|
||||
description: Whole cell capacitance compensation, in farads.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__whole_cell_capacitance_comp
|
||||
required: false
|
||||
multivalued: false
|
||||
whole_cell_series_resistance_comp:
|
||||
name: whole_cell_series_resistance_comp
|
||||
description: Whole cell series resistance compensation, in ohms.
|
||||
multivalued: false
|
||||
range: VoltageClampSeries__whole_cell_series_resistance_comp
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
VoltageClampSeries__data:
|
||||
name: VoltageClampSeries__data
|
||||
|
|
@ -274,7 +266,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -296,7 +287,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(capacitance_fast)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: capacitance_fast
|
||||
|
|
@ -315,7 +305,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(capacitance_slow)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: capacitance_slow
|
||||
|
|
@ -334,7 +323,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(resistance_comp_bandwidth)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: resistance_comp_bandwidth
|
||||
|
|
@ -354,7 +342,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(resistance_comp_correction)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: resistance_comp_correction
|
||||
|
|
@ -374,7 +361,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(resistance_comp_prediction)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: resistance_comp_prediction
|
||||
|
|
@ -394,7 +380,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(whole_cell_capacitance_comp)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: whole_cell_capacitance_comp
|
||||
|
|
@ -414,7 +399,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(whole_cell_series_resistance_comp)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: whole_cell_series_resistance_comp
|
||||
|
|
@ -434,15 +418,14 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Stimulus voltage applied.
|
||||
multivalued: false
|
||||
range: VoltageClampStimulusSeries__data
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
VoltageClampStimulusSeries__data:
|
||||
name: VoltageClampStimulusSeries__data
|
||||
|
|
@ -451,7 +434,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(data)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: data
|
||||
|
|
@ -473,59 +455,58 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
cell_id:
|
||||
name: cell_id
|
||||
description: unique ID of the cell
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
description:
|
||||
name: description
|
||||
description: Description of electrode (e.g., whole-cell, sharp, etc.).
|
||||
multivalued: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
filtering:
|
||||
name: filtering
|
||||
description: Electrode specific filtering.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
initial_access_resistance:
|
||||
name: initial_access_resistance
|
||||
description: Initial access resistance.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
location:
|
||||
name: location
|
||||
description: Location of the electrode. Specify the area, layer, comments
|
||||
on estimation of area/layer, stereotaxic coordinates if in vivo, etc. Use
|
||||
standard atlas names for anatomical regions when possible.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
resistance:
|
||||
name: resistance
|
||||
description: Electrode resistance, in ohms.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
seal:
|
||||
name: seal
|
||||
description: Information about seal used for recording.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
slice:
|
||||
name: slice
|
||||
description: Information about slice used for recording.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
SweepTable:
|
||||
name: SweepTable
|
||||
|
|
@ -537,38 +518,34 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
sweep_number:
|
||||
name: sweep_number
|
||||
description: Sweep number of the PatchClampSeries in that row.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: uint32
|
||||
required: true
|
||||
multivalued: false
|
||||
series:
|
||||
name: series
|
||||
description: The PatchClampSeries with the sweep number in that row.
|
||||
multivalued: true
|
||||
range: PatchClampSeries
|
||||
required: true
|
||||
multivalued: true
|
||||
series_index:
|
||||
name: series_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index for series.
|
||||
range: VectorIndex
|
||||
required: true
|
||||
multivalued: false
|
||||
range: SweepTable__series_index
|
||||
required: true
|
||||
tree_root: true
|
||||
SweepTable__series_index:
|
||||
name: SweepTable__series_index
|
||||
description: Index for series.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(series_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: series_index
|
||||
IntracellularElectrodesTable:
|
||||
name: IntracellularElectrodesTable
|
||||
description: Table for storing intracellular electrode related metadata.
|
||||
|
|
@ -576,7 +553,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -586,8 +562,9 @@ classes:
|
|||
electrode:
|
||||
name: electrode
|
||||
description: Column for storing the reference to the intracellular electrode.
|
||||
multivalued: true
|
||||
range: IntracellularElectrode
|
||||
required: true
|
||||
multivalued: true
|
||||
tree_root: true
|
||||
IntracellularStimuliTable:
|
||||
name: IntracellularStimuliTable
|
||||
|
|
@ -596,7 +573,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -605,45 +581,27 @@ classes:
|
|||
range: text
|
||||
stimulus:
|
||||
name: stimulus
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Column storing the reference to the recorded stimulus for the
|
||||
recording (rows).
|
||||
multivalued: false
|
||||
range: IntracellularStimuliTable__stimulus
|
||||
range: TimeSeriesReferenceVectorData
|
||||
required: true
|
||||
multivalued: false
|
||||
stimulus_template:
|
||||
name: stimulus_template
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Column storing the reference to the stimulus template for the
|
||||
recording (rows).
|
||||
multivalued: false
|
||||
range: IntracellularStimuliTable__stimulus_template
|
||||
range: TimeSeriesReferenceVectorData
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
IntracellularStimuliTable__stimulus:
|
||||
name: IntracellularStimuliTable__stimulus
|
||||
description: Column storing the reference to the recorded stimulus for the recording
|
||||
(rows).
|
||||
is_a: TimeSeriesReferenceVectorData
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(stimulus)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: stimulus
|
||||
IntracellularStimuliTable__stimulus_template:
|
||||
name: IntracellularStimuliTable__stimulus_template
|
||||
description: Column storing the reference to the stimulus template for the recording
|
||||
(rows).
|
||||
is_a: TimeSeriesReferenceVectorData
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(stimulus_template)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: stimulus_template
|
||||
IntracellularResponsesTable:
|
||||
name: IntracellularResponsesTable
|
||||
description: Table for storing intracellular response related metadata.
|
||||
|
|
@ -651,7 +609,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
description:
|
||||
|
|
@ -660,25 +617,16 @@ classes:
|
|||
range: text
|
||||
response:
|
||||
name: response
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Column storing the reference to the recorded response for the
|
||||
recording (rows)
|
||||
range: TimeSeriesReferenceVectorData
|
||||
required: true
|
||||
multivalued: false
|
||||
range: IntracellularResponsesTable__response
|
||||
required: true
|
||||
tree_root: true
|
||||
IntracellularResponsesTable__response:
|
||||
name: IntracellularResponsesTable__response
|
||||
description: Column storing the reference to the recorded response for the recording
|
||||
(rows)
|
||||
is_a: TimeSeriesReferenceVectorData
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(response)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: response
|
||||
IntracellularRecordingsTable:
|
||||
name: IntracellularRecordingsTable
|
||||
description: A table to group together a stimulus and response from a single electrode
|
||||
|
|
@ -697,7 +645,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(intracellular_recordings)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: intracellular_recordings
|
||||
|
|
@ -709,21 +656,21 @@ classes:
|
|||
electrodes:
|
||||
name: electrodes
|
||||
description: Table for storing intracellular electrode related metadata.
|
||||
multivalued: false
|
||||
range: IntracellularElectrodesTable
|
||||
required: true
|
||||
multivalued: false
|
||||
stimuli:
|
||||
name: stimuli
|
||||
description: Table for storing intracellular stimulus related metadata.
|
||||
multivalued: false
|
||||
range: IntracellularStimuliTable
|
||||
required: true
|
||||
multivalued: false
|
||||
responses:
|
||||
name: responses
|
||||
description: Table for storing intracellular response related metadata.
|
||||
multivalued: false
|
||||
range: IntracellularResponsesTable
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
SimultaneousRecordingsTable:
|
||||
name: SimultaneousRecordingsTable
|
||||
|
|
@ -735,7 +682,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(simultaneous_recordings)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: simultaneous_recordings
|
||||
|
|
@ -743,15 +689,19 @@ classes:
|
|||
name: recordings
|
||||
description: A reference to one or more rows in the IntracellularRecordingsTable
|
||||
table.
|
||||
multivalued: false
|
||||
range: SimultaneousRecordingsTable__recordings
|
||||
required: true
|
||||
multivalued: false
|
||||
recordings_index:
|
||||
name: recordings_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index dataset for the recordings column.
|
||||
multivalued: false
|
||||
range: SimultaneousRecordingsTable__recordings_index
|
||||
range: VectorIndex
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
SimultaneousRecordingsTable__recordings:
|
||||
name: SimultaneousRecordingsTable__recordings
|
||||
|
|
@ -762,7 +712,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(recordings)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: recordings
|
||||
|
|
@ -772,18 +721,6 @@ classes:
|
|||
table region applies to. This specializes the attribute inherited from DynamicTableRegion
|
||||
to fix the type of table that can be referenced here.
|
||||
range: IntracellularRecordingsTable
|
||||
SimultaneousRecordingsTable__recordings_index:
|
||||
name: SimultaneousRecordingsTable__recordings_index
|
||||
description: Index dataset for the recordings column.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(recordings_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: recordings_index
|
||||
SequentialRecordingsTable:
|
||||
name: SequentialRecordingsTable
|
||||
description: A table for grouping different sequential recordings from the SimultaneousRecordingsTable
|
||||
|
|
@ -795,7 +732,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(sequential_recordings)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: sequential_recordings
|
||||
|
|
@ -803,20 +739,28 @@ classes:
|
|||
name: simultaneous_recordings
|
||||
description: A reference to one or more rows in the SimultaneousRecordingsTable
|
||||
table.
|
||||
multivalued: false
|
||||
range: SequentialRecordingsTable__simultaneous_recordings
|
||||
required: true
|
||||
multivalued: false
|
||||
simultaneous_recordings_index:
|
||||
name: simultaneous_recordings_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index dataset for the simultaneous_recordings column.
|
||||
multivalued: false
|
||||
range: SequentialRecordingsTable__simultaneous_recordings_index
|
||||
range: VectorIndex
|
||||
required: true
|
||||
multivalued: false
|
||||
stimulus_type:
|
||||
name: stimulus_type
|
||||
description: The type of stimulus used for the sequential recording.
|
||||
multivalued: true
|
||||
array:
|
||||
minimum_number_dimensions: 1
|
||||
maximum_number_dimensions: false
|
||||
range: text
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
SequentialRecordingsTable__simultaneous_recordings:
|
||||
name: SequentialRecordingsTable__simultaneous_recordings
|
||||
|
|
@ -827,7 +771,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(simultaneous_recordings)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: simultaneous_recordings
|
||||
|
|
@ -837,18 +780,6 @@ classes:
|
|||
table region applies to. This specializes the attribute inherited from DynamicTableRegion
|
||||
to fix the type of table that can be referenced here.
|
||||
range: SimultaneousRecordingsTable
|
||||
SequentialRecordingsTable__simultaneous_recordings_index:
|
||||
name: SequentialRecordingsTable__simultaneous_recordings_index
|
||||
description: Index dataset for the simultaneous_recordings column.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(simultaneous_recordings_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: simultaneous_recordings_index
|
||||
RepetitionsTable:
|
||||
name: RepetitionsTable
|
||||
description: A table for grouping different sequential intracellular recordings
|
||||
|
|
@ -860,7 +791,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(repetitions)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: repetitions
|
||||
|
|
@ -868,15 +798,19 @@ classes:
|
|||
name: sequential_recordings
|
||||
description: A reference to one or more rows in the SequentialRecordingsTable
|
||||
table.
|
||||
multivalued: false
|
||||
range: RepetitionsTable__sequential_recordings
|
||||
required: true
|
||||
multivalued: false
|
||||
sequential_recordings_index:
|
||||
name: sequential_recordings_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index dataset for the sequential_recordings column.
|
||||
multivalued: false
|
||||
range: RepetitionsTable__sequential_recordings_index
|
||||
range: VectorIndex
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
RepetitionsTable__sequential_recordings:
|
||||
name: RepetitionsTable__sequential_recordings
|
||||
|
|
@ -887,7 +821,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(sequential_recordings)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: sequential_recordings
|
||||
|
|
@ -897,18 +830,6 @@ classes:
|
|||
region applies to. This specializes the attribute inherited from DynamicTableRegion
|
||||
to fix the type of table that can be referenced here.
|
||||
range: SequentialRecordingsTable
|
||||
RepetitionsTable__sequential_recordings_index:
|
||||
name: RepetitionsTable__sequential_recordings_index
|
||||
description: Index dataset for the sequential_recordings column.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(sequential_recordings_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: sequential_recordings_index
|
||||
ExperimentalConditionsTable:
|
||||
name: ExperimentalConditionsTable
|
||||
description: A table for grouping different intracellular recording repetitions
|
||||
|
|
@ -918,22 +839,25 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(experimental_conditions)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: experimental_conditions
|
||||
repetitions:
|
||||
name: repetitions
|
||||
description: A reference to one or more rows in the RepetitionsTable table.
|
||||
multivalued: false
|
||||
range: ExperimentalConditionsTable__repetitions
|
||||
required: true
|
||||
multivalued: false
|
||||
repetitions_index:
|
||||
name: repetitions_index
|
||||
annotations:
|
||||
named:
|
||||
tag: named
|
||||
value: true
|
||||
description: Index dataset for the repetitions column.
|
||||
multivalued: false
|
||||
range: ExperimentalConditionsTable__repetitions_index
|
||||
range: VectorIndex
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ExperimentalConditionsTable__repetitions:
|
||||
name: ExperimentalConditionsTable__repetitions
|
||||
|
|
@ -943,7 +867,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(repetitions)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: repetitions
|
||||
|
|
@ -953,15 +876,3 @@ classes:
|
|||
applies to. This specializes the attribute inherited from DynamicTableRegion
|
||||
to fix the type of table that can be referenced here.
|
||||
range: RepetitionsTable
|
||||
ExperimentalConditionsTable__repetitions_index:
|
||||
name: ExperimentalConditionsTable__repetitions_index
|
||||
description: Index dataset for the repetitions column.
|
||||
is_a: VectorIndex
|
||||
attributes:
|
||||
name:
|
||||
name: name
|
||||
ifabsent: string(repetitions_index)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: repetitions_index
|
||||
|
|
|
|||
|
|
@ -21,7 +21,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -32,7 +31,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -43,7 +41,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -59,16 +56,15 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Binary data representing images across frames. If data are stored
|
||||
in an external file, this should be an empty 3D array.
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -84,12 +80,12 @@ classes:
|
|||
dimension:
|
||||
name: dimension
|
||||
description: Number of pixels on x, y, (and z) axes.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: rank
|
||||
range: int32
|
||||
required: false
|
||||
multivalued: false
|
||||
external_file:
|
||||
name: external_file
|
||||
description: Paths to one or more external file(s). The field is only present
|
||||
|
|
@ -97,18 +93,18 @@ classes:
|
|||
in the file system as one or more image file(s). This field should NOT be
|
||||
used if the image is stored in another NWB file and that file is linked
|
||||
to this file.
|
||||
multivalued: false
|
||||
range: ImageSeries__external_file
|
||||
required: false
|
||||
multivalued: false
|
||||
format:
|
||||
name: format
|
||||
description: Format of image. If this is 'external', then the attribute 'external_file'
|
||||
contains the path information to the image files. If this is 'raw', then
|
||||
the raw (single-channel) binary data is stored in the 'data' dataset. If
|
||||
this attribute is not present, then the default format='raw' case is assumed.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
ImageSeries__external_file:
|
||||
name: ImageSeries__external_file
|
||||
|
|
@ -120,7 +116,6 @@ classes:
|
|||
name:
|
||||
name: name
|
||||
ifabsent: string(external_file)
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
equals_string: external_file
|
||||
|
|
@ -156,7 +151,6 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
tree_root: true
|
||||
|
|
@ -171,21 +165,20 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
distance:
|
||||
name: distance
|
||||
description: Distance from camera/monitor to target/eye.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
field_of_view:
|
||||
name: field_of_view
|
||||
description: Width, height and depth of image, or imaged area, in meters.
|
||||
multivalued: false
|
||||
range: float32
|
||||
required: false
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -198,9 +191,9 @@ classes:
|
|||
data:
|
||||
name: data
|
||||
description: Images presented to subject, either grayscale or RGB
|
||||
multivalued: false
|
||||
range: numeric
|
||||
required: true
|
||||
multivalued: false
|
||||
any_of:
|
||||
- array:
|
||||
dimensions:
|
||||
|
|
@ -218,9 +211,9 @@ classes:
|
|||
name: orientation
|
||||
description: Description of image relative to some reference frame (e.g.,
|
||||
which way is up). Must also specify frame of reference.
|
||||
multivalued: false
|
||||
range: text
|
||||
required: false
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
IndexSeries:
|
||||
name: IndexSeries
|
||||
|
|
@ -235,17 +228,16 @@ classes:
|
|||
attributes:
|
||||
name:
|
||||
name: name
|
||||
identifier: true
|
||||
range: string
|
||||
required: true
|
||||
data:
|
||||
name: data
|
||||
description: Index of the image (using zero-indexing) in the linked Images
|
||||
object.
|
||||
multivalued: false
|
||||
array:
|
||||
dimensions:
|
||||
- alias: num_times
|
||||
range: uint32
|
||||
required: true
|
||||
multivalued: false
|
||||
tree_root: true
|
||||
|
|
|
|||
|
|
@ -19,53 +19,67 @@ types:
|
|||
float32:
|
||||
name: float32
|
||||
typeof: float
|
||||
repr: np.float32
|
||||
float64:
|
||||
name: float64
|
||||
typeof: double
|
||||
repr: np.float64
|
||||
long:
|
||||
name: long
|
||||
typeof: integer
|
||||
repr: np.longlong
|
||||
int64:
|
||||
name: int64
|
||||
typeof: integer
|
||||
repr: np.int64
|
||||
int:
|
||||
name: int
|
||||
typeof: integer
|
||||
int32:
|
||||
name: int32
|
||||
typeof: integer
|
||||
repr: np.int32
|
||||
int16:
|
||||
name: int16
|
||||
typeof: integer
|
||||
repr: np.int16
|
||||
short:
|
||||
name: short
|
||||
typeof: integer
|
||||
repr: np.int16
|
||||
int8:
|
||||
name: int8
|
||||
typeof: integer
|
||||
repr: np.int8
|
||||
uint:
|
||||
name: uint
|
||||
typeof: integer
|
||||
repr: np.uint64
|
||||
minimum_value: 0
|
||||
uint32:
|
||||
name: uint32
|
||||
typeof: integer
|
||||
repr: np.uint32
|
||||
minimum_value: 0
|
||||
uint16:
|
||||
name: uint16
|
||||
typeof: integer
|
||||
repr: np.uint16
|
||||
minimum_value: 0
|
||||
uint8:
|
||||
name: uint8
|
||||
typeof: integer
|
||||
repr: np.uint8
|
||||
minimum_value: 0
|
||||
uint64:
|
||||
name: uint64
|
||||
typeof: integer
|
||||
repr: np.uint64
|
||||
minimum_value: 0
|
||||
numeric:
|
||||
name: numeric
|
||||
typeof: float
|
||||
repr: np.number
|
||||
text:
|
||||
name: text
|
||||
typeof: string
|
||||
|
|
@ -87,58 +101,7 @@ types:
|
|||
isodatetime:
|
||||
name: isodatetime
|
||||
typeof: datetime
|
||||
enums:
|
||||
FlatDType:
|
||||
name: FlatDType
|
||||
permissible_values:
|
||||
float:
|
||||
text: float
|
||||
float32:
|
||||
text: float32
|
||||
double:
|
||||
text: double
|
||||
float64:
|
||||
text: float64
|
||||
long:
|
||||
text: long
|
||||
int64:
|
||||
text: int64
|
||||
int:
|
||||
text: int
|
||||
int32:
|
||||
text: int32
|
||||
int16:
|
||||
text: int16
|
||||
short:
|
||||
text: short
|
||||
int8:
|
||||
text: int8
|
||||
uint:
|
||||
text: uint
|
||||
uint32:
|
||||
text: uint32
|
||||
uint16:
|
||||
text: uint16
|
||||
uint8:
|
||||
text: uint8
|
||||
uint64:
|
||||
text: uint64
|
||||
numeric:
|
||||
text: numeric
|
||||
text:
|
||||
text: text
|
||||
utf:
|
||||
text: utf
|
||||
utf8:
|
||||
text: utf8
|
||||
utf_8:
|
||||
text: utf_8
|
||||
ascii:
|
||||
text: ascii
|
||||
bool:
|
||||
text: bool
|
||||
isodatetime:
|
||||
text: isodatetime
|
||||
repr: np.datetime64
|
||||
classes:
|
||||
AnyType:
|
||||
name: AnyType
|
||||
|
|
|
|||
Some files were not shown because too many files have changed in this diff Show more
Loading…
Reference in a new issue