Repositories list

• napari-clusters-plotter

  Public
  A napari plugin for clustering objects according to their properties.

  pythonclusteringsoftware+ 2

  pythonclusteringsoftwareplottingnapari-plugin

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •1010 forks•9090 stars•3434 issues•55 pull requests•Updated Apr 20, 2026Apr 20, 2026

• biaplotter

  Public
  A base napari plotter widget for interactive plotting

  pythonpackageplotting

  pythonpackageplotting

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •33 forks•66 stars•1010 issues•11 pull request•Updated Apr 20, 2026Apr 20, 2026

• napari-crop

  Public
  packagesoftwarenapari-plugin

  packagesoftwarenapari-plugin

  Jupyter Notebook

  •

  BSD 3-Clause "New" or "Revised" License

  •55 forks•1414 stars•1717 issues•11 pull request•Updated Jan 22, 2026Jan 22, 2026

• .github

  Public
  00 forks•11 star•11 issue•00 pull requests•Updated Dec 16, 2025Dec 16, 2025

• omero-tools

  Public
  Example notebooks and tricks to interact with OMERO from Python

  omeroexample-codeomero-py+ 1

  omeroexample-codeomero-pyomero-import

  GNU General Public License v2.0

  •11 fork•55 stars•00 issues•11 pull request•Updated Dec 5, 2025Dec 5, 2025

• ezomero_and_napari_omero_basics

  Public
  teaching-materials

  teaching-materials

  Jupyter Notebook

  •

  Creative Commons Attribution 4.0 International

  •00 forks•22 stars•00 issues•00 pull requests•Updated Sep 28, 2025Sep 28, 2025

• BioImage-Analysis-and-Data-Processing-Workshop-2025

  Public
  teaching-materials

  teaching-materials

  Creative Commons Attribution 4.0 International

  •00 forks•11 star•00 issues•00 pull requests•Updated Jul 3, 2025Jul 3, 2025

• blog

  Public
  Most of us study and work at the Bio-image Analysis Technology Development group at the DFG Cluster of Excellence “Physics of Life” at the TU Dresden. We blog a…

  teaching-materials

  teaching-materials

  Creative Commons Attribution 4.0 International

  •99 forks•1616 stars•88 issues•33 pull requests•Updated Jun 27, 2025Jun 27, 2025

• AMHCT_Bio_Image_Analysis_2025

  Public
  teaching-materials

  teaching-materials

  Creative Commons Attribution 4.0 International

  •00 forks•22 stars•00 issues•00 pull requests•Updated Jun 3, 2025Jun 3, 2025

• QM_Course_Bio_Image_Analysis_with_napari_2025

  Public
  teaching-materials

  teaching-materials

  Creative Commons Attribution 4.0 International

  •11 fork•11 star•00 issues•00 pull requests•Updated Apr 24, 2025Apr 24, 2025

• TrendsInMicroscopy_2025

  Public
  Image analysis workshop at TrendsInMicroscopy2025

  teaching-materials

  teaching-materials

  Creative Commons Attribution 4.0 International

  •00 forks•00 stars•00 issues•00 pull requests•Updated Mar 19, 2025Mar 19, 2025

• DIGS-BB_LM_Course_Bio-Image_Analysis_2024

  Public
  teaching-materials

  teaching-materials

  Creative Commons Attribution 4.0 International

  •00 forks•00 stars•00 issues•00 pull requests•Updated Sep 18, 2024Sep 18, 2024

• BioImage-Analysis-and-Data-Processing-Workshop-2024

  Public
  This repository hosts material for the BioImage Analysis and Data Processing Workshop 2024, which takes place in VMCF Microscopy Facility, Vinicna 7, Prague, Cz…

  teaching-materials

  teaching-materials

  Shell

  •

  Creative Commons Attribution 4.0 International

  •11 fork•55 stars•00 issues•00 pull requests•Updated Aug 8, 2024Aug 8, 2024

• napari-clusters-plotter-example-notebooks

  Public
  This repository hosts jupyter notebooks with examples of napari-clusters-plotter usage

  example-code

  example-code

  Jupyter Notebook

  •

  BSD 3-Clause "New" or "Revised" License

  •22 forks•33 stars•11 issue•11 pull request•Updated Jun 13, 2024Jun 13, 2024

• PoL-BioImage-Analysis-TS-GPU-Accelerated-Image-Analysis

  Public
  PoL Bioimage Analysis Training School: GPU-Accelerated Image Analysis Track

  training-materials

  training-materials

  Cool

  •

  Creative Commons Attribution 4.0 International

  •99 forks•2828 stars•00 issues•00 pull requests•Updated Jun 5, 2024Jun 5, 2024

• biapol.github.io

  Public
  HTML

  •00 forks•00 stars•00 issues•00 pull requests•Updated Mar 21, 2024Mar 21, 2024

• microscope-gym

  Public
  An open python smart-microscopy API

  package

  package

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •00 forks•22 stars•00 issues•11 pull request•Updated Nov 28, 2023Nov 28, 2023

• Pasteur-NEUBIAS-training-school-on-Bioimage-Analysis

  Public
  Training school focused on Bioimage Analysis. Home page: https://research.pasteur.fr/en/course/neubias-pasteur-course-on-bioimage-analysis/

  training-materials

  training-materials

  Cool

  •

  Creative Commons Attribution 4.0 International

  •99 forks•00 stars•00 issues•00 pull requests•Updated Oct 14, 2023Oct 14, 2023

• Fileserver-to-HPC

  Public
  Monitors a folder and automatically processes new subdirectories on an HPC cluster.

  Roff

  •

  BSD 3-Clause "New" or "Revised" License

  •00 forks•22 stars•11 issue•11 pull request•Updated Sep 22, 2023Sep 22, 2023

• Bio-image_Analysis_with_Python

  Public
  Lecture materials "Bio-image analysis, biostatistics, programming and machine learning for computational biology" at the Center of Molecular and Cellular Bioeng…

  training-materialsteaching-materials

  training-materialsteaching-materials

  Jupyter Notebook

  •

  Creative Commons Attribution 4.0 International

  •5454 forks•235235 stars•33 issues•00 pull requests•Updated Sep 11, 2023Sep 11, 2023

• DIGS-BB_LM_Course_Bio-Image_Analysis_2023

  Public
  This repository contains a collection of Python Jupyter notebooks for a one afternoon course in Image Analysis using Python and Napari.

  training-materialsteaching-materials

  training-materialsteaching-materials

  Jupyter Notebook

  •

  BSD 3-Clause "New" or "Revised" License

  •00 forks•00 stars•33 issues•00 pull requests•Updated Sep 7, 2023Sep 7, 2023

• PoL-BioImage-Analysis-TS-Early-Career-Track

  Public
  training-materialsteaching-materials

  training-materialsteaching-materials

  Shell

  •

  Creative Commons Attribution 4.0 International

  •33 forks•88 stars•00 issues•00 pull requests•Updated Sep 6, 2023Sep 6, 2023

• scripts

  Public
  Jupyter Notebook

  •00 forks•00 stars•00 issues•00 pull requests•Updated Aug 2, 2023Aug 2, 2023

• docker-example-omero

  Public
  OMERO Docker compose example

  Shell

  •

  BSD 2-Clause "Simplified" License

  •3434 forks•00 stars•00 issues•00 pull requests•Updated Jul 28, 2023Jul 28, 2023

• Image-data-science-with-Python-and-Napari-EPFL2022

  Public
  training-materialsteaching-materials

  training-materialsteaching-materials

  Cool

  •

  Creative Commons Attribution 4.0 International

  •99 forks•1616 stars•22 issues•11 pull request•Updated Jul 21, 2023Jul 21, 2023

• guanine-crystal-analysis

  Public
  A plugin for the guanine crystal segmentation, classification and characterization in the zebrafish eye

  softwarenapari-plugin

  softwarenapari-plugin

  Cool

  •

  BSD 3-Clause "New" or "Revised" License

  •00 forks•22 stars•11 issue•00 pull requests•Updated May 30, 2023May 30, 2023

• Rescaling-blogpost

  Public
  This repository hosts a jupyter notebook and a minimal example for the rescaling-blogpost

  Jupyter Notebook

  •

  Creative Commons Attribution 4.0 International

  •11 fork•00 stars•00 issues•00 pull requests•Updated Apr 17, 2023Apr 17, 2023

• Annotation-in-3D-blogpost

  Public
  This repository hosts a proposal for an annotation template for community annotations

  Jupyter Notebook

  •

  Creative Commons Attribution 4.0 International

  •00 forks•55 stars•00 issues•00 pull requests•Updated Apr 17, 2023Apr 17, 2023

• Segmentation-quality-assurance-blogpost

  Public
  This repository hosts jupyter notebooks, images and videos for the segmentation quality assurance blog post.

  Jupyter Notebook

  •

  Creative Commons Attribution 4.0 International

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 17, 2023Apr 17, 2023

• biapol-taurus

  Public
  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •00 forks•22 stars•66 issues•11 pull request•Updated Mar 9, 2023Mar 9, 2023