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