cellpose segments cells in images
meta:map
Groovy Map containing sample information (sample id)
image:file
tif file for ready for segmentation
*.{tif,tiff}
model:file
Optional input file. Cellpose 2 model trained by user using human-in-the-loop approach.
mask
Groovy Map containing sample information [sample id]
*masks.tif:file
labelled mask output from cellpose in tif format
*.{tif, tiff}
flows
*flows.tif:file
cell flow output from cellpose
*.{tif}
versions
versions.yml:file
File containing software versions
versions.yml
cellpose is an anatomical segmentation algorithm written in Python 3 by Carsen Stringer and Marius Pachitariu
