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    • Community-contributed and experimental CellProfiler modules.
      Python
      6859289Updated Dec 18, 2024Dec 18, 2024
    • An open-source application for biological image analysis
      Python
      Other
      38192928715Updated Dec 18, 2024Dec 18, 2024
    • An open source image processing library
      Python
      Other
      3618300Updated Dec 18, 2024Dec 18, 2024
    • core

      Public
      Core classes and components used by CellProfiler
      Python
      Other
      24600Updated Nov 12, 2024Nov 12, 2024
    • .github

      Public
      Default files are stored here, such as code of conduct
      0000Updated Oct 27, 2024Oct 27, 2024
    • tutorials

      Public
      CellProfiler tutorial pipelines and images
      Jupyter Notebook
      BSD 3-Clause "New" or "Revised" License
      868530Updated Oct 25, 2024Oct 25, 2024
    • Everything needed to build CellProfiler for your favorite environment.
      Python
      Other
      64130Updated Sep 26, 2024Sep 26, 2024
    • Read and write life sciences file formats
      Python
      Other
      47133708Updated Sep 13, 2024Sep 13, 2024
    • Python wrapper for the Java Native Interface
      Python
      Other
      6321113Updated Sep 13, 2024Sep 13, 2024
    • Open-source software for exploring and analyzing large, high-dimensional image-derived data.
      Python
      Other
      72148705Updated Aug 15, 2024Aug 15, 2024
    • Web app for exploring CellProfiler data and combining with metadata
      Python
      BSD 3-Clause "New" or "Revised" License
      0000Updated Dec 20, 2023Dec 20, 2023
    • CellProfiler’s Java dependencies
      Java
      GNU General Public License v3.0
      11231Updated Jul 6, 2023Jul 6, 2023
    • examples

      Public
      Example CellProfiler pipelines.
      Makefile
      BSD 3-Clause "New" or "Revised" License
      141151Updated Jul 19, 2022Jul 19, 2022
    • library

      Public archive
      Python
      BSD 3-Clause "New" or "Revised" License
      1200Updated Mar 2, 2022Mar 2, 2022
    • Freeze (package) Python programs into stand-alone executables
      Python
      Other
      1.9k000Updated Jun 24, 2020Jun 24, 2020
    • CellProfiler Website
      JavaScript
      4260Updated May 5, 2020May 5, 2020
    • stitching

      Public
      Image stitching
      Python
      Other
      61131Updated Dec 23, 2018Dec 23, 2018
    • meoir

      Public
      Profiling modules from CellProfiler-Analyst for exploring and analyzing large, high-dimensional image-derived data. http://cellprofiler.org
      Python
      1100Updated Sep 23, 2018Sep 23, 2018
    • notebooks

      Public
      Jupyter notebooks for CellProfiler and friends
      Jupyter Notebook
      61220Updated Mar 23, 2018Mar 23, 2018
    • CellProfiler-1.0

      Public archive
      ⚠️ ARCHIVED ⚠️ CellProfiler 1.0 (Matlab-based), current version at: CellProfiler/CellProfiler
      MATLAB
      Other
      8900Updated Jan 24, 2018Jan 24, 2018
    • RFC

      Public
      A place to propose new features for CellProfiler
      0000Updated Nov 30, 2017Nov 30, 2017
    • docker

      Public archive
      Makefile
      10200Updated Nov 16, 2017Nov 16, 2017
    • OLD cp website repo. Current repo is here: https://github.com/CellProfiler/cellprofiler.github.com. We are currently in the process of transferring any remaining and relevant issues to the current Github repo so that this repo can then be deleted.
      HTML
      Other
      2330Updated Feb 8, 2017Feb 8, 2017
    • BatchProfiler

      Public archive
      Python
      11131Updated Apr 4, 2016Apr 4, 2016
    • tutorial

      Public archive
      Python
      3020Updated Mar 2, 2016Mar 2, 2016
    • jenkins

      Public archive
      Shell
      2131Updated Jan 12, 2016Jan 12, 2016
    • ZMQ connection between CellProfiler and Knime
      Java
      BSD 3-Clause "New" or "Revised" License
      1140Updated Aug 25, 2015Aug 25, 2015
    • CellProfiler-rpm

      Public archive
      1000Updated Apr 13, 2015Apr 13, 2015
    • CellProfiler-build

      Public archive
      Infrastructure for continuous integration and automatic builds of CellProfiler internally at the Broad institute
      Python
      GNU General Public License v2.0
      3100Updated Apr 13, 2015Apr 13, 2015
    • CPCharm

      Public archive
      Python
      2300Updated Jan 23, 2015Jan 23, 2015