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@COBA-NIH Center for Open Bioimage Analysis

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    33 repositories

    • MicroscopyForBeginnersReferenceGuide_es

      Public
      Spanish translation of bioimagingguide.org
      0•0•0•0•Updated Apr 21, 2026Apr 21, 2026

    • MicroscopyForBeginnersReferenceGuide_ja

      Public
      Japanese translation of bioimagingguide.org
      0•0•0•0•Updated Apr 21, 2026Apr 21, 2026

    • MicroscopyForBeginnersReferenceGuide_cs

      Public
      0•0•0•0•Updated Apr 21, 2026Apr 21, 2026

    • MicroscopyForBeginnersReferenceGuide_pt

      Public
      0•0•0•0•Updated Apr 21, 2026Apr 21, 2026

    • i2kconference

      Public
      I2K Conference Website
      SCSS
      •
      Creative Commons Zero v1.0 Universal
      •2•1•0•0•Updated Apr 19, 2026Apr 19, 2026

    • i2kconference2025

      Public
      Copy of the I2K website for the 2025 event
      SCSS
      •
      Creative Commons Zero v1.0 Universal
      •0•0•0•0•Updated Apr 18, 2026Apr 18, 2026

    • MicroscopyForBeginnersReferenceGuide

      Public
      A Beginner's guide to microscopy, from sample prep to acquisition, image analysis, and data interpretation
      TeX
      •
      BSD 3-Clause "New" or "Revised" License
      •13•29•5•1•Updated Apr 11, 2026Apr 11, 2026

    • UNet_3D_C_elegans

      Public
      3D segmentation of the C. elegans germ line
      Jupyter Notebook
      •3•3•0•0•Updated Feb 8, 2026Feb 8, 2026

    • 2024_Bridging_Imaging_Users_to_Imaging_Analysis_Survey

      Public
      Data from the 2024 Bridging Imaging Users to Imaging Analysis Survey. Led by COBA, BINA, RMS, and GloBIAS.
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Sep 15, 2025Sep 15, 2025

    • i2kconference2024

      Public
      Archive of the 2024 website
      SCSS
      •
      Creative Commons Zero v1.0 Universal
      •0•0•0•0•Updated Sep 11, 2025Sep 11, 2025

    • 2023_ImageAnalysisSurvey

      Public
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •0•3•2•0•Updated Feb 10, 2025Feb 10, 2025

    • TRD2_protocols

      Public
      Jupyter Notebook
      •1•0•0•0•Updated Dec 4, 2024Dec 4, 2024

    • bioimage_object_analysis_schema

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•0•0•Updated Sep 7, 2024Sep 7, 2024

    • Barczak_Collagen

      Public
      Groovy
      •0•0•0•0•Updated Jul 14, 2024Jul 14, 2024

    • Tutorials

      Public
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Jun 8, 2024Jun 8, 2024

    • docker_gradio_demo

      Public
      Python
      •1•5•0•0•Updated Jun 7, 2024Jun 7, 2024

    • McAllister_Spasic_Project

      Public
      0•0•0•0•Updated May 1, 2024May 1, 2024

    • WebImageAnalysisPerspective

      Public
      Code supporting "Moving beyond the desktop: Prospects for Practical Bioimage Analysis via the Web" by Wei Ouyang, Beth A. Cimini, and Kevin W. Eliceiri
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Mar 18, 2024Mar 18, 2024

    • HardinLab

      Public
      2020 02 06 COBA Embryonic epidermis, Jeff Hardin Lab (UW-Madison) - p_20embryonicepidermis
      ImageJ Macro
      •1•0•0•0•Updated Mar 14, 2024Mar 14, 2024

    • Introduction_To_Docker

      Public
      Files to create your own Docker_beginner
      Python
      •0•0•0•0•Updated Jan 30, 2024Jan 30, 2024

    • docker_notebook_demo

      Public
      Demo repository for notebook-ization of any Python-containing Docker container
      Dockerfile
      •0•0•0•0•Updated Jan 21, 2024Jan 21, 2024

    • i2kconference2023

      Public
      Archive of the 2023 conference website
      SCSS
      •
      Creative Commons Zero v1.0 Universal
      •0•0•0•0•Updated Jan 9, 2024Jan 9, 2024

    • I2K_ST_data_analysis

      Public
      Jupyter Notebook
      •4•9•0•0•Updated Oct 18, 2023Oct 18, 2023

    • CellProfilerPluginsPaper

      Public
      Repository for code and files related to CellProfiler Plugins paper
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Aug 1, 2023Aug 1, 2023

    • i2kconference2022

      Public
      Archive of the 2022 conference website
      SCSS
      •
      Creative Commons Zero v1.0 Universal
      •0•0•0•0•Updated Aug 1, 2023Aug 1, 2023

    • Newmark

      Public
      Pipelines for the Newmark Lab Projects at UW-Madison
      Groovy
      •0•1•0•0•Updated Mar 30, 2023Mar 30, 2023

    • Edwards---Exocytosis-event-detection

      Public
      Image analysis pipeline to detect exocytosis (vesicle fusion at plasma membrane) on TIRF microscopy timelapse images
      Jupyter Notebook
      •2•2•0•1•Updated Mar 30, 2023Mar 30, 2023

    • albumentations_3d

      Public
      Paired augmentations (image, mask, weight map) for 3D multichannel images
      Python
      •2•1•0•0•Updated Mar 1, 2023Mar 1, 2023

    • FIJI_macros

      Public
      Fiji macros
      ImageJ Macro
      •1•0•0•0•Updated Feb 21, 2023Feb 21, 2023

    • SkalaLab

      Public
      Improved pipelines (Organoids, Immune cells, Adherent cells) for Skala lab, UW-Madison
      0•1•0•0•Updated Aug 16, 2022Aug 16, 2022
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