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    78 repositories

    • dpct

      Public
      Dynamic Programming Cell Tracking Solver
      C++
      •
      MIT License
      •0•2•0•1•Updated Apr 17, 2026Apr 17, 2026

    • ilastik.github.io

      Public
      HTML
      •
      Other
      •18•3•21•7•Updated Apr 14, 2026Apr 14, 2026

    • ilastik

      Public
      ilastik-shell, applets, and workflows to string them together.
      pythonmachine-learningqt
      pythonmachine-learningqtilastik
      Python
      •
      Other
      •181•397•546•40•Updated Apr 1, 2026Apr 1, 2026

    • tiktorch

      Public
      Tiktorch
      Python
      •
      MIT License
      •10•12•42•5•Updated Mar 31, 2026Mar 31, 2026

    • volumina

      Public
      Volume Slicing and Editing
      Python
      •
      Other
      •83•33•27•14•Updated Mar 30, 2026Mar 30, 2026

    • app-pass

      Public
      Fix common issues in Mach-O binaries for notarization
      macosapplemach-o
      macosapplemach-omacosxgatekeepercodesigningapp-bundlesnotarizationapp-bundle
      Python
      •
      MIT License
      •1•3•2•0•Updated Mar 20, 2026Mar 20, 2026

    • ilastik4ij

      Public
      ImageJ plugins to run ilastik workflows
      Java
      •
      MIT License
      •18•27•23•6•Updated Mar 9, 2026Mar 9, 2026

    • ilastik-napari

      Public
      ilastik plugin for napari
      ilastiknapari-plugin
      ilastiknapari-plugin
      Python
      •
      MIT License
      •3•15•3•2•Updated Mar 2, 2026Mar 2, 2026

    • nature_methods_multicut_pipeline

      Public
      connectomicsneuron-segmentation
      connectomicsneuron-segmentation
      Python
      •
      Other
      •2•22•1•1•Updated Jan 6, 2026Jan 6, 2026

    • conda-3rdparty

      Public
      extract license info for conda environments
      condalicense-managementlicenses
      condalicense-managementlicensesconda-environmentconda-packages
      Python
      •
      MIT License
      •0•0•0•0•Updated Dec 23, 2025Dec 23, 2025

    • publish-conda-stack

      Public
      Scripts to update our published conda packages when our recipes have changed.
      Python
      •
      MIT License
      •3•0•1•0•Updated Nov 25, 2025Nov 25, 2025

    • ilastiktools

      Public
      tools for carving
      C++
      •4•1•0•1•Updated Nov 24, 2025Nov 24, 2025

    • hytra

      Public
      Python module for multi HYpotheses TRAcking
      trackingilastik
      trackingilastik
      Python
      •
      MIT License
      •7•2•5•1•Updated Nov 24, 2025Nov 24, 2025

    • marching_cubes

      Public
      Standalone marching cubes implementation and Python bindings
      C++
      •
      BSD 3-Clause "New" or "Revised" License
      •14•100•3•2•Updated Nov 24, 2025Nov 24, 2025

    • ndstructs

      Public
      Utility classes to deal with 5d arrays
      Python
      •
      MIT License
      •2•1•1•2•Updated Nov 24, 2025Nov 24, 2025

    • ilastikrag

      Public
      ND Region Adjacency Graph with edge feature algorithms
      Jupyter Notebook
      •
      Other
      •2•0•0•1•Updated Nov 24, 2025Nov 24, 2025

    • fastfilters2

      Public
      SIMD-accelerated 2D and 3D image features
      C++
      •
      MIT License
      •0•1•0•6•Updated Oct 27, 2025Oct 27, 2025

    • ilastik-conda-recipes

      Public
      Conda recipes for building ilastik dependencies.
      Shell
      •16•9•7•0•Updated Aug 4, 2025Aug 4, 2025

    • multiHypothesesTracking

      Public
      C++
      •
      MIT License
      •7•12•2•0•Updated Jun 10, 2025Jun 10, 2025

    • webilastik

      Public
      A revision of classic ilastik to drop legacy stuff and make it portable
      Python
      •
      MIT License
      •3•8•9•0•Updated Apr 7, 2025Apr 7, 2025

    • fastfilters

      Public
      fast gaussian and derivative convolutional filters
      C++
      •
      MIT License
      •9•1•0•0•Updated Mar 11, 2025Mar 11, 2025

    • ilastiktools-fork

      Public
      tools for carving
      C++
      •4•0•0•1•Updated Mar 5, 2025Mar 5, 2025

    • bioimage-io-resources

      Public
      resources for the BioImage.IO Model Zoo
      HTML
      •4•2•1•0•Updated Dec 16, 2024Dec 16, 2024

    • cloud_ilastik

      Public
      APIs for running ilastik inside HPB infra
      Python
      •
      Other
      •0•1•15•3•Updated Nov 18, 2024Nov 18, 2024

    • ilastik-oc-feats-cookiecutter

      Public
      cookiecutter for ilastik object feature plugins
      cookiecutterilastik
      cookiecutterilastik
      Python
      •0•0•0•0•Updated Oct 24, 2024Oct 24, 2024

    • unique-bincount-benchmark

      Public
      Python
      •4•0•0•0•Updated Sep 4, 2024Sep 4, 2024

    • wsdt

      Public
      watershed on distance transform
      Python
      •1•5•0•1•Updated Dec 4, 2023Dec 4, 2023

    • ilastik-feature-selection

      Public
      Select filter features with mutual-information-based methods
      Jupyter Notebook
      •
      MIT License
      •6•11•1•1•Updated Dec 4, 2023Dec 4, 2023

    • neuroglancer

      Public
      WebGL-based viewer for volumetric data
      TypeScript
      •
      Apache License 2.0
      •359•0•0•0•Updated Aug 11, 2023Aug 11, 2023

    • ilastikrag-fork

      Public
      ND Region Adjacency Graph with edge feature algorithms
      Jupyter Notebook
      •
      Other
      •2•0•0•0•Updated Aug 11, 2023Aug 11, 2023
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