64 lines (45 loc) · 1.45 KB

cellpose

cellpose is an anatomical segmentation algorithm written in Python 3 by Carsen Stringer and Marius Pachitariu. For support, please open an issue.

We make pip installable releases of cellpose, here is the pypi. You can install it as pip install cellpose[gui].

You can try it out without installing at cellpose.org. Also check out these resources:

Cellpose 2.0

paper on biorxiv
twitter paper
human-in-the-loop training protocol video

Cellpose 1.0

paper on biorxiv (see figure 1 below) and in nature methods
twitter thread
Marius's talk

.. toctree::
   :maxdepth: 3
   :caption: Basics:

   installation
   gui
   inputs
   settings
   outputs
   models
   train

.. toctree::
   :maxdepth: 3
   :caption: Examples:

   notebook
   command

.. toctree::
   :caption: API Reference:

   api