Cellpose

Cellpose is a generalist tool for cellular segmentation using deep learning. Lern more about Cellpose at Cellpose repository.

Environment

Cellpose is available in the cellpose environment.

To activate the environment, pre-fix your commands with:

pixi run -e cellpose YOUR_COMMAND

Available Tasks

Cellpose 2D GUI

Start the Cellpose graphical interface for 2D segmentation:

pixi run cellpose

Cellpose 3D GUI

Start the Cellpose graphical interface for 3D segmentation:

pixi run cellpose-3D