perch.structure

Classes

Structure([pi, id, id_ph, img_shape, sdir])

Class for storing information about a topological structure in an image.

class perch.structure.Structure(pi=None, id=None, id_ph=None, img_shape=None, sdir='./')

Class for storing information about a topological structure in an image.

Parameters

piarray-like: Array of persistence information. The first element is the homology type, the second is the birth time, the third is the death time, the next three are the birth pixel coordinates, and the last three are the death pixel coordinates.
idint: Unique identifier for the structure, in the subset of selected structures.
id_phint: Unique identifier for the structure, in the full persistence diagram.
img_shapetuple: Shape of the image the structure is segmented from.
sdirstr: Directory to save/load structure information.

compute_segment(img)

Compute the segmentation of the structure in the image.

get_values(img=None)

Get image values of the structure.