Repositories list

• qupath

  Public
  QuPath - Open-source bioimage analysis for research

  groovyopencvmachine-learning+ 13

  groovyopencvmachine-learningimagejjavafximage-processinghistologycell-segmentationbioimage-informaticsdigital-pathology+ 6

  Java

  •

  GNU General Public License v3.0

  •337•1.3k•38•2•Updated Mar 31, 2026Mar 31, 2026

• qupath-extension-bioimageio

  Public
  A QuPath extension for working with the Bioimage Model Zoo (https://bioimage.io)

  Java

  •

  Apache License 2.0

  •3•6•2•0•Updated Mar 31, 2026Mar 31, 2026

• qupath-bioimageio-spec

  Public
  Support for parsing the BioImage Model Zoo spec in Java

  Java

  •

  MIT License

  •2•0•2•0•Updated Mar 30, 2026Mar 30, 2026

• qupath-extension-omero

  Public
  QuPath extension to work with images through OMERO's APIs

  Java

  •

  Apache License 2.0

  •2•8•3•0•Updated Mar 27, 2026Mar 27, 2026

• qupath-catalog

  Public
  The catalog containing QuPath extensions developed by the QuPath team

  Apache License 2.0

  •3•1•2•1•Updated Mar 25, 2026Mar 25, 2026

• qupath.github.io

  Public
  GitHub pages site

  SCSS

  •

  MIT License

  •5•2•0•2•Updated Mar 23, 2026Mar 23, 2026

• qupath-extension-template

  Public template
  Template to help create a new QuPath extension

  Java

  •13•21•0•0•Updated Mar 19, 2026Mar 19, 2026

• qupath-extension-stitching

  Public
  A QuPath extension to combine TIFF images

  Java

  •

  Apache License 2.0

  •0•1•0•0•Updated Mar 16, 2026Mar 16, 2026

• libczi-jars

  Public
  0•0•0•0•Updated Mar 16, 2026Mar 16, 2026

• qupath-gradle-scripting-project

  Public template
  Groovy

  •3•0•0•0•Updated Mar 9, 2026Mar 9, 2026

• log-viewer

  Public
  Java

  •

  Apache License 2.0

  •2•6•4•1•Updated Mar 2, 2026Mar 2, 2026

• qupath-docs

  Public
  QuPath documentation

  Python

  •25•21•7•1•Updated Mar 2, 2026Mar 2, 2026

• qupath-imglib2

  Public
  A Java library to link QuPath and ImgLib2

  Java

  •

  Apache License 2.0

  •1•1•1•0•Updated Feb 25, 2026Feb 25, 2026

• qupath-extension-djl

  Public
  A QuPath extension for working with Deep Java Library (https://djl.ai)

  Java

  •

  Apache License 2.0

  •7•9•3•0•Updated Feb 25, 2026Feb 25, 2026

• qubalab

  Public
  Lab for quantitative bioimage analysis experiments in Python

  Python

  •

  Apache License 2.0

  •5•19•0•0•Updated Feb 16, 2026Feb 16, 2026

• javadoc-viewer

  Public
  A simple JavaFX Javadoc viewer

  Java

  •

  Apache License 2.0

  •1•0•0•0•Updated Feb 11, 2026Feb 11, 2026

• qupath-extension-omero-web

  Public
  QuPath extension to work with images through OMERO's web API

  Java

  •

  GNU General Public License v3.0

  •11•10•8•0•Updated Feb 10, 2026Feb 10, 2026

• qupath-extension-instanseg

  Public
  The official QuPath extension for InstanSeg

  Java

  •

  Apache License 2.0

  •5•29•7•0•Updated Jan 21, 2026Jan 21, 2026

• extension-manager

  Public
  A manager for catalogs and extensions.

  Java

  •

  Apache License 2.0

  •2•0•0•0•Updated Jan 12, 2026Jan 12, 2026

• actions

  Public
  GitHub actions for QuPath and related repositories

  Shell

  •

  Apache License 2.0

  •1•0•0•0•Updated Jan 7, 2026Jan 7, 2026

• qupath-extension-wsinfer

  Public
  QuPath extension to work with WSInfer - https://wsinfer.readthedocs.io/

  Java

  •

  Apache License 2.0

  •9•28•1•1•Updated Dec 3, 2025Dec 3, 2025

• qupath-fxtras

  Public
  Reusable JavaFX tools for QuPath (and beyond)

  Java

  •

  Apache License 2.0

  •3•6•1•0•Updated Nov 25, 2025Nov 25, 2025

• i2k-qupath-for-python-programmers

  Public archive
  Jupyter Notebook

  •

  Apache License 2.0

  •1•7•0•0•Updated Nov 5, 2025Nov 5, 2025

• qupath-extension-training

  Public
  A QuPath extension to help with learning the software

  Java

  •

  Apache License 2.0

  •3•1•1•1•Updated Nov 4, 2025Nov 4, 2025

• qupath-extension-align

  Public
  QuPath extension to interactively align images

  Java

  •

  GNU General Public License v3.0

  •10•26•2•0•Updated Aug 7, 2025Aug 7, 2025

• qupath-extension-py4j

  Public
  A QuPath extension for linking up to Python via Py4J (https://www.py4j.org)

  Java

  •

  Apache License 2.0

  •3•1•0•0•Updated Jul 28, 2025Jul 28, 2025

• qupath-gradle-plugin

  Public
  Gradle plugins to help create QuPath extensions

  Java

  •

  Apache License 2.0

  •1•2•0•0•Updated Jul 2, 2025Jul 2, 2025

• qupath-extension-jpen

  Public
  QuPath extension using JPen for graphics tablet input

  Java

  •

  GNU General Public License v3.0

  •4•1•0•0•Updated Jul 2, 2025Jul 2, 2025

• qupath-extension-liverquant

  Public
  A QuPath extension to run the Liverquant algorithm

  Java

  •

  Apache License 2.0

  •1•0•0•0•Updated Jul 2, 2025Jul 2, 2025

• qupath-extension-snapshots

  Public
  A QuPath extension to help with making screenshots

  Java

  •

  Apache License 2.0

  •2•1•0•0•Updated Jul 2, 2025Jul 2, 2025