Repositories list

• .github

  Public
  0•1•1•0•Updated Mar 25, 2025Mar 25, 2025

• biaplotter

  Public
  A base napari plotter widget for interactive plotting

  pythonpackageplotting

  Python

  •

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

  •2•7•5•1•Updated Mar 21, 2025Mar 21, 2025

• napari-clusters-plotter

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

  pythonclusteringsoftware+ 2plottingnapari-plugin

  Jupyter Notebook

  •

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

  •11•82•35•9•Updated Mar 21, 2025Mar 21, 2025

• TrendsInMicroscopy_2025

  Public
  Image analysis workshop at TrendsInMicroscopy2025

  teaching-materials

  Creative Commons Attribution 4.0 International

  •0•0•0•0•Updated Mar 19, 2025Mar 19, 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 about image data science, knowledge exchange and research data management in the life sciences.

  teaching-materials

  Creative Commons Attribution 4.0 International

  •8•14•8•3•Updated Mar 14, 2025Mar 14, 2025

• omero-tools

  Public
  Example notebooks and tricks to interact with OMERO from Python

  omeroexample-codeomero-py+ 1omero-import

  GNU General Public License v2.0

  •0•4•0•1•Updated Mar 12, 2025Mar 12, 2025

• DIGS-BB_LM_Course_Bio-Image_Analysis_2024

  Public
  teaching-materials

  Creative Commons Attribution 4.0 International

  •0•0•0•0•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, Czechia

  teaching-materials

  Shell

  •

  Creative Commons Attribution 4.0 International

  •1•4•0•0•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

  Jupyter Notebook

  •

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

  •2•3•1•1•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

  Cool

  •

  Creative Commons Attribution 4.0 International

  •9•25•0•0•Updated Jun 5, 2024Jun 5, 2024

• biapol.github.io

  Public
  HTML

  •0•0•0•0•Updated Mar 21, 2024Mar 21, 2024

• napari-crop

  Public
  packagesoftwarenapari-plugin

  Jupyter Notebook

  •

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

  •4•8•17•1•Updated Dec 5, 2023Dec 5, 2023

• microscope-gym

  Public
  An open python smart-microscopy API

  package

  Python

  •

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

  •0•2•0•1•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

  Cool

  •

  Creative Commons Attribution 4.0 International

  •8•0•0•0•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

  •0•2•1•1•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 Bioengineering (CMCB) / University of Technology, TU Dresden

  training-materialsteaching-materials

  Jupyter Notebook

  •

  Creative Commons Attribution 4.0 International

  •50•205•3•0•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

  Jupyter Notebook

  •

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

  •0•0•3•0•Updated Sep 7, 2023Sep 7, 2023

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

  Public
  training-materialsteaching-materials

  Shell

  •

  Creative Commons Attribution 4.0 International

  •3•7•0•0•Updated Sep 6, 2023Sep 6, 2023

• scripts

  Public
  Jupyter Notebook

  •0•0•0•0•Updated Aug 2, 2023Aug 2, 2023

• docker-example-omero

  Public
  OMERO Docker compose example

  Shell

  •

  BSD 2-Clause "Simplified" License

  •28•0•0•0•Updated Jul 28, 2023Jul 28, 2023

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

  Public
  training-materialsteaching-materials

  Cool

  •

  Creative Commons Attribution 4.0 International

  •8•15•2•1•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

  Cool

  •

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

  •0•2•1•0•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

  •1•0•0•0•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

  •0•5•0•0•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

  •0•0•0•0•Updated Apr 17, 2023Apr 17, 2023

• biapol-taurus

  Public
  Python

  •

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

  •0•2•6•1•Updated Mar 9, 2023Mar 9, 2023

• stardist-envs

  Public
  environments

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

  •0•1•1•0•Updated Feb 27, 2023Feb 27, 2023

• blog-1

  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 about image data science, knowledge exchange and research data management in the life sciences.

  Creative Commons Attribution 4.0 International

  •8•0•0•0•Updated Jan 20, 2023Jan 20, 2023

• HIP_Summer_School_Image_Data_Visualization_101

  Public
  training-materialsteaching-materials

  Jupyter Notebook

  •0•1•0•0•Updated Jan 20, 2023Jan 20, 2023

• hackathon-london-2022-11

  Public
  Collection of code from the CLIJ-CZI-EOSS hackathon at the Francis Crick Institute in Londin

  example-code

  Jupyter Notebook

  •

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

  •0•3•0•0•Updated Nov 25, 2022Nov 25, 2022