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https://github.com/p2p-ld/nwb-linkml.git
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sneakers-the-rat
4faaa8efe8
or at least all the semantics are present. it's not pretty by any stretch of the imagination
333 lines
11 KiB
YAML
333 lines
11 KiB
YAML
name: core.nwb.retinotopy
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id: core.nwb.retinotopy
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imports:
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- core.nwb.base
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- nwb.language
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default_prefix: core.nwb.retinotopy/
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classes:
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ImagingRetinotopy:
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name: ImagingRetinotopy
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description: 'Intrinsic signal optical imaging or widefield imaging for measuring
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retinotopy. Stores orthogonal maps (e.g., altitude/azimuth; radius/theta) of
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responses to specific stimuli and a combined polarity map from which to identify
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visual areas. This group does not store the raw responses imaged during retinotopic
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mapping or the stimuli presented, but rather the resulting phase and power maps
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after applying a Fourier transform on the averaged responses. Note: for data
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consistency, all images and arrays are stored in the format [row][column] and
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[row, col], which equates to [y][x]. Field of view and dimension arrays may
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appear backward (i.e., y before x).'
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is_a: NWBDataInterface
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attributes:
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axis_1_phase_map:
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name: axis_1_phase_map
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description: Phase response to stimulus on the first measured axis.
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multivalued: false
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range: ImagingRetinotopy_axis_1_phase_map
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required: true
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axis_1_power_map:
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name: axis_1_power_map
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description: Power response on the first measured axis. Response is scaled
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so 0.0 is no power in the response and 1.0 is maximum relative power.
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multivalued: false
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range: ImagingRetinotopy_axis_1_power_map
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required: false
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axis_2_phase_map:
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name: axis_2_phase_map
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description: Phase response to stimulus on the second measured axis.
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multivalued: false
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range: ImagingRetinotopy_axis_2_phase_map
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required: true
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axis_2_power_map:
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name: axis_2_power_map
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description: Power response on the second measured axis. Response is scaled
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so 0.0 is no power in the response and 1.0 is maximum relative power.
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multivalued: false
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range: ImagingRetinotopy_axis_2_power_map
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required: false
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axis_descriptions:
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name: axis_descriptions
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description: Two-element array describing the contents of the two response
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axis fields. Description should be something like ['altitude', 'azimuth']
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or '['radius', 'theta'].
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multivalued: false
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range: ImagingRetinotopy_axis_descriptions
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required: true
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focal_depth_image:
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name: focal_depth_image
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description: 'Gray-scale image taken with same settings/parameters (e.g.,
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focal depth, wavelength) as data collection. Array format: [rows][columns].'
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multivalued: false
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range: ImagingRetinotopy_focal_depth_image
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required: false
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sign_map:
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name: sign_map
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description: Sine of the angle between the direction of the gradient in axis_1
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and axis_2.
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multivalued: false
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range: ImagingRetinotopy_sign_map
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required: false
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vasculature_image:
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name: vasculature_image
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description: 'Gray-scale anatomical image of cortical surface. Array structure:
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[rows][columns]'
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multivalued: false
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range: ImagingRetinotopy_vasculature_image
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required: true
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ImagingRetinotopy_axis_1_phase_map:
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name: ImagingRetinotopy_axis_1_phase_map
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description: Phase response to stimulus on the first measured axis.
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attributes:
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dimension:
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name: dimension
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description: 'Number of rows and columns in the image. NOTE: row, column representation
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is equivalent to height, width.'
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range: int32
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field_of_view:
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name: field_of_view
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description: Size of viewing area, in meters.
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range: float32
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unit:
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name: unit
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description: Unit that axis data is stored in (e.g., degrees).
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range: text
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array:
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name: array
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range: ImagingRetinotopy_axis_1_phase_map_Array
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ImagingRetinotopy_axis_1_phase_map_Array:
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name: ImagingRetinotopy_axis_1_phase_map_Array
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is_a: Arraylike
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attributes:
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num_rows:
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name: num_rows
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range: float32
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required: false
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num_cols:
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name: num_cols
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range: float32
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required: false
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ImagingRetinotopy_axis_1_power_map:
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name: ImagingRetinotopy_axis_1_power_map
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description: Power response on the first measured axis. Response is scaled so
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0.0 is no power in the response and 1.0 is maximum relative power.
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attributes:
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dimension:
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name: dimension
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description: 'Number of rows and columns in the image. NOTE: row, column representation
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is equivalent to height, width.'
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range: int32
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field_of_view:
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name: field_of_view
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description: Size of viewing area, in meters.
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range: float32
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unit:
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name: unit
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description: Unit that axis data is stored in (e.g., degrees).
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range: text
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array:
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name: array
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range: ImagingRetinotopy_axis_1_power_map_Array
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ImagingRetinotopy_axis_1_power_map_Array:
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name: ImagingRetinotopy_axis_1_power_map_Array
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is_a: Arraylike
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attributes:
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num_rows:
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name: num_rows
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range: float32
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required: false
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num_cols:
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name: num_cols
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range: float32
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required: false
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ImagingRetinotopy_axis_2_phase_map:
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name: ImagingRetinotopy_axis_2_phase_map
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description: Phase response to stimulus on the second measured axis.
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attributes:
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dimension:
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name: dimension
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description: 'Number of rows and columns in the image. NOTE: row, column representation
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is equivalent to height, width.'
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range: int32
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field_of_view:
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name: field_of_view
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description: Size of viewing area, in meters.
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range: float32
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unit:
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name: unit
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description: Unit that axis data is stored in (e.g., degrees).
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range: text
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array:
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name: array
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range: ImagingRetinotopy_axis_2_phase_map_Array
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ImagingRetinotopy_axis_2_phase_map_Array:
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name: ImagingRetinotopy_axis_2_phase_map_Array
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is_a: Arraylike
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attributes:
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num_rows:
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name: num_rows
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range: float32
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required: false
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num_cols:
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name: num_cols
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range: float32
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required: false
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ImagingRetinotopy_axis_2_power_map:
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name: ImagingRetinotopy_axis_2_power_map
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description: Power response on the second measured axis. Response is scaled so
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0.0 is no power in the response and 1.0 is maximum relative power.
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attributes:
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dimension:
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name: dimension
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description: 'Number of rows and columns in the image. NOTE: row, column representation
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is equivalent to height, width.'
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range: int32
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field_of_view:
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name: field_of_view
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description: Size of viewing area, in meters.
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range: float32
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unit:
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name: unit
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description: Unit that axis data is stored in (e.g., degrees).
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range: text
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array:
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name: array
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range: ImagingRetinotopy_axis_2_power_map_Array
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ImagingRetinotopy_axis_2_power_map_Array:
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name: ImagingRetinotopy_axis_2_power_map_Array
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is_a: Arraylike
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attributes:
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num_rows:
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name: num_rows
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range: float32
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required: false
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num_cols:
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name: num_cols
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range: float32
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required: false
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ImagingRetinotopy_axis_descriptions:
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name: ImagingRetinotopy_axis_descriptions
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description: Two-element array describing the contents of the two response axis
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fields. Description should be something like ['altitude', 'azimuth'] or '['radius',
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'theta'].
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attributes:
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array:
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name: array
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range: ImagingRetinotopy_axis_descriptions_Array
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ImagingRetinotopy_axis_descriptions_Array:
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name: ImagingRetinotopy_axis_descriptions_Array
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is_a: Arraylike
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attributes:
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axis_1, axis_2:
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name: axis_1, axis_2
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range: text
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required: true
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minimum_cardinality: 2
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maximum_cardinality: 2
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ImagingRetinotopy_focal_depth_image:
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name: ImagingRetinotopy_focal_depth_image
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description: 'Gray-scale image taken with same settings/parameters (e.g., focal
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depth, wavelength) as data collection. Array format: [rows][columns].'
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attributes:
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bits_per_pixel:
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name: bits_per_pixel
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description: Number of bits used to represent each value. This is necessary
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to determine maximum (white) pixel value.
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range: int32
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dimension:
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name: dimension
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description: 'Number of rows and columns in the image. NOTE: row, column representation
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is equivalent to height, width.'
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range: int32
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field_of_view:
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name: field_of_view
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description: Size of viewing area, in meters.
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range: float32
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focal_depth:
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name: focal_depth
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description: Focal depth offset, in meters.
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range: float32
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format:
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name: format
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description: Format of image. Right now only 'raw' is supported.
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range: text
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array:
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name: array
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range: ImagingRetinotopy_focal_depth_image_Array
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ImagingRetinotopy_focal_depth_image_Array:
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name: ImagingRetinotopy_focal_depth_image_Array
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is_a: Arraylike
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attributes:
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num_rows:
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name: num_rows
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range: uint16
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required: false
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num_cols:
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name: num_cols
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range: uint16
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required: false
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ImagingRetinotopy_sign_map:
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name: ImagingRetinotopy_sign_map
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description: Sine of the angle between the direction of the gradient in axis_1
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and axis_2.
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attributes:
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dimension:
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name: dimension
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description: 'Number of rows and columns in the image. NOTE: row, column representation
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is equivalent to height, width.'
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range: int32
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field_of_view:
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name: field_of_view
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description: Size of viewing area, in meters.
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range: float32
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array:
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name: array
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range: ImagingRetinotopy_sign_map_Array
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ImagingRetinotopy_sign_map_Array:
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name: ImagingRetinotopy_sign_map_Array
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is_a: Arraylike
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attributes:
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num_rows:
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name: num_rows
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range: float32
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required: false
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num_cols:
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name: num_cols
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range: float32
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required: false
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ImagingRetinotopy_vasculature_image:
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name: ImagingRetinotopy_vasculature_image
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description: 'Gray-scale anatomical image of cortical surface. Array structure:
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[rows][columns]'
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attributes:
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bits_per_pixel:
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name: bits_per_pixel
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description: Number of bits used to represent each value. This is necessary
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to determine maximum (white) pixel value
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range: int32
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dimension:
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name: dimension
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description: 'Number of rows and columns in the image. NOTE: row, column representation
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is equivalent to height, width.'
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range: int32
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field_of_view:
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name: field_of_view
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description: Size of viewing area, in meters.
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range: float32
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format:
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name: format
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description: Format of image. Right now only 'raw' is supported.
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range: text
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array:
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name: array
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range: ImagingRetinotopy_vasculature_image_Array
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ImagingRetinotopy_vasculature_image_Array:
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name: ImagingRetinotopy_vasculature_image_Array
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is_a: Arraylike
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attributes:
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num_rows:
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name: num_rows
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range: uint16
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required: false
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num_cols:
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name: num_cols
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range: uint16
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required: false
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