Skip to content
Change the repository type filter

All

    Repositories list

    • Jupyter Notebook
      BSD 3-Clause "New" or "Revised" License
      1021Updated May 27, 2026May 27, 2026
    • ome-arrow

      Public
      Using OME specifications with Apache Arrow for fast, queryable, and language agnostic bioimage data.
      Python
      BSD 3-Clause "New" or "Revised" License
      1760Updated May 27, 2026May 27, 2026
    • Image2Image Translation Model Optimization and Training to Predict Stains from Brightfield with Cell Painting Data
      HTML
      BSD 3-Clause "New" or "Revised" License
      2002Updated May 25, 2026May 25, 2026
    • This repo contains analysis code of profiles generated in multiple image-based profiling repos.
      Jupyter Notebook
      BSD 3-Clause "New" or "Revised" License
      3111Updated May 25, 2026May 25, 2026
    • Python package for transport-of-intensity equation ported from MATLAB to Python using Claude Sonnet 4.6
      Python
      Other
      0000Updated May 23, 2026May 23, 2026
    • buscar

      Public
      Single cell hit calling for high-content screens
      Python
      BSD 3-Clause "New" or "Revised" License
      2664Updated May 22, 2026May 22, 2026
    • Single cell analysis of the JUMP Cell Painting consortium pilot data (cpg0000)
      Jupyter Notebook
      BSD 3-Clause "New" or "Revised" License
      5431Updated May 21, 2026May 21, 2026
    • Python
      BSD 3-Clause "New" or "Revised" License
      1131Updated May 16, 2026May 16, 2026
    • Homepage for all happenings in the Way Lab at CU Anschutz
      SCSS
      BSD 3-Clause "New" or "Revised" License
      11420Updated May 14, 2026May 14, 2026
    • A format-agnostic framework for cataloging and querying bioimaging data (Parquet, OME-Zarr, OME-TIFF) with Apache Iceberg
      Python
      BSD 3-Clause "New" or "Revised" License
      1111Updated May 9, 2026May 9, 2026
    • playbooks

      Public
      Playbooks relevant to the operations of the Way Lab and similar labs.
      Shell
      Creative Commons Zero v1.0 Universal
      2080Updated May 8, 2026May 8, 2026
    • Allows JUMP users to download JUMP images by filtering JUMP image metadata.
      Python
      BSD 3-Clause "New" or "Revised" License
      0100Updated May 7, 2026May 7, 2026
    • A Napari plugin for OME-Arrow and OME-Parquet bioimage data
      Python
      BSD 3-Clause "New" or "Revised" License
      1110Updated May 4, 2026May 4, 2026
    • Contains analysis that was used to benchmark Buscar
      Jupyter Notebook
      1030Updated May 1, 2026May 1, 2026
    • For developing virtual staining models
      Python
      BSD 3-Clause "New" or "Revised" License
      1251Updated Apr 30, 2026Apr 30, 2026
    • Jupyter Notebook
      BSD 3-Clause "New" or "Revised" License
      1000Updated Apr 28, 2026Apr 28, 2026
    • Benchmarking OME Arrow through Parquet, Vortex, LanceDB, and more.
      Python
      BSD 3-Clause "New" or "Revised" License
      1052Updated Apr 27, 2026Apr 27, 2026
    • Image analysis and image-based profiling of a fibrosis drug screen to identify compound hits using a machine learning model.
      Jupyter Notebook
      Creative Commons Zero v1.0 Universal
      43121Updated Apr 10, 2026Apr 10, 2026
    • Jupyter Notebook
      Creative Commons Zero v1.0 Universal
      2021Updated Apr 8, 2026Apr 8, 2026
    • meerqat

      Public
      Validate bioimaging datasets by detecting missing files, metadata gaps, and structural inconsistencies early.
      BSD 3-Clause "New" or "Revised" License
      1001Updated Mar 30, 2026Mar 30, 2026
    • Image analyis and image-based profiling of nuclear speckle dataset extracting intensity based features.
      Jupyter Notebook
      Creative Commons Zero v1.0 Universal
      1000Updated Mar 30, 2026Mar 30, 2026
    • A DuckDB extension for querying Zarr arrays with SQL through relational projection.
      C++
      MIT License
      1600Updated Mar 29, 2026Mar 29, 2026
    • Deep learning–based vision model for segmentation of cells within NF1 organoids.
      Python
      BSD 3-Clause "New" or "Revised" License
      1200Updated Mar 27, 2026Mar 27, 2026
    • Jupyter Notebook
      BSD 3-Clause "New" or "Revised" License
      34111Updated Mar 24, 2026Mar 24, 2026
    • nViz

      Public
      A tool for creating and visualizing n-dimensional microscopy images.
      Python
      BSD 3-Clause "New" or "Revised" License
      33266Updated Mar 16, 2026Mar 16, 2026
    • Image analysis and image-based profiling workflows to extract morphology profiles from the PCCMA Atlas dataset.
      BSD 3-Clause "New" or "Revised" License
      1000Updated Mar 10, 2026Mar 10, 2026
    • Demonstrating various CellProfiler development or implementations.
      Shell
      BSD 3-Clause "New" or "Revised" License
      1010Updated Mar 8, 2026Mar 8, 2026
    • Jupyter Notebook
      BSD 3-Clause "New" or "Revised" License
      1023Updated Mar 6, 2026Mar 6, 2026
    • Image analysis and image-based profiling of pediatic cancer cell lines to extract morphological profiles.
      Jupyter Notebook
      Creative Commons Zero v1.0 Universal
      5631Updated Feb 10, 2026Feb 10, 2026
    • CPBS7601

      Public
      Course on computing skills in biomedical informatics
      Jupyter Notebook
      BSD 3-Clause "New" or "Revised" License
      21502Updated Jan 8, 2026Jan 8, 2026
    ProTip! When viewing an organization's repositories, you can use the props. filter to filter by custom property.