Nuclei Segmentation Python Packages

stardist

StarDist - Object Detection with Star-convex Shapes

cellseg-models-pytorch

Encoder-Decoder Cell and Nuclei segmentation models

micro-sam

Segment Anything for Microscopy

fishfeats

Napari plugin for spatial RNA quantification

napari-tmidas

Automated batch processing of cell and tissue microscopy image data in Napari

napari-nuclephaser

A Napari plugin for automated cell nuclei detection, cell proliferation & population growth analysis, and single-cell tracking in brightfield and fluorescence microscopy images

stardist-napari

StarDist plugin for napari

vitaminp

VitaminP: a vision transformer-assisted multimodal integration network for pathology cell segmentation

cellseg-gsontools

Feature extraction from GEOJson nuclei and tissue segmentation maps

prismtoolbox

Toolbox for histopathology image analysis