diameters#

omnipose.core.diameters(masks, dt=None, dist_threshold=0)[source]#

Calculate the mean cell diameter from a label matrix.

Parameters
  • masks (ND array, float) -- label matrix 0,...,N

  • dt (ND array, float) -- distance field

  • dist_threshold (float) -- cutoff below which all values in dt are set to 0. Must be >=0.

Returns

diam -- a single number that corresponds to the average diameter of labeled regions in the image, see dist_to_diam()

Return type

float