thor.pp.load_nuclei

thor.pp.load_nuclei(nuclei_path=None, source_format='cellpose')

Load nuclei segmentation result from a file.

Parameters:

• nuclei_path (str) – Path to the nuclei segmentation result file.

• source_format (str) – Format of the nuclei segmentation result file. Options: ‘cellprofiler’, ‘cellpose’, ‘mask_array_npz’.

Returns:

• labels (numpy array) – Nuclei segmentation labels (numpy array: n_cells)

• nuclei_centroids (numpy array) – Nuclei positions (numpy array: n_cells x 2)