Created on Tue Oct 1 01:38:16 2019.
- histomicstk.workflows.specific_workflows.cellularity_detection_workflow(gc, cdo, slide_id, monitorPrefix='', destination_folder_id=None, keep_existing_annotations=False)¶
Run cellularity detection for single slide.
The cellularity detection algorithm can either be Cellularity_detector_superpixels or Cellularity_detector_thresholding.
gc (object) – girder client object
cdo (object) – Cellularity_detector object instance. Can either be Cellularity_detector_superpixels() or Cellularity_detector_thresholding(). The thresholding-based workflow seems to be more robust, despite being simpler.
slide_id (str) – girder id of slide on which workflow is done
monitorPrefix (str) – this will set the cds monitorPrefix attribute
keep_existing_annotations (bool) – keep existing annotations in slide when posting results?