siibra.features.tabular.cell_density_profile
Module Contents
Classes
Represents a 1-dimensional profile of measurements along cortical depth, |
- class siibra.features.tabular.cell_density_profile.CellDensityProfile(section: int, patch: int, url: str, anchor: siibra.features.anchor.AnatomicalAnchor, datasets: list = [], id: str = None)
Represents a 1-dimensional profile of measurements along cortical depth, measured at relative depths between 0 representing the pial surface, and 1 corresponding to the gray/white matter boundary.
Mandatory attributes are the list of depth coordinates and the list of corresponding measurement values, which have to be of equal length, as well as a unit and description of the measurements.
Optionally, the depth coordinates of layer boundaries can be specified.
Most attributes are modelled as properties, so dervide classes are able to implement lazy loading instead of direct initialiation.
- property boundary_positions
- property cells
- property density_image
- property depth_image
Cortical depth image from layer boundary polygons by equidistant sampling.
- property key
- property layer_mask
Generates a layer mask from boundary annotations.
- property layers
- property location
- property shape
- BIGBRAIN_VOLUMETRIC_SHRINKAGE_FACTOR = 1.931
- DESCRIPTION = 'Cortical profile of estimated densities of detected cell bodies (in detected cells per 0.1 cube...'
- classmethod CELL_READER(b)
- classmethod LAYER_READER(b)
- boundary_annotation(boundary)
Returns the annotation of a specific layer boundary.
- layer_annotation(layer)
- static poly_rev(poly)
- static poly_srt(poly)