QuPath StarDist extension

Welcome to the StarDist extension for QuPath!

This adds support for running the 2D version of StarDist nucleus detection developed by Uwe Schmidt and Martin Weigert.

The current version is written for QuPath v0.5.0+ - the documentation is here.

See what's new in the changelog;

Installing

See readthedocs for details.

Citing

If you use this extension, you should cite the original StarDist publication

• Uwe Schmidt, Martin Weigert, Coleman Broaddus, and Gene Myers.
  Cell Detection with Star-convex Polygons.
  International Conference on Medical Image Computing and Computer-Assisted Intervention (MICCAI), Granada, Spain, September 2018.

You should also cite the QuPath publication, as described here.

Building

You can build the QuPath StarDist extension from source with

gradlew clean build

The output will be under build/libs.

• clean removes anything old
• build builds the QuPath extension as a .jar file and adds it to libs