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    15 repositories

    • stack-to-chunk

      Public
      Convert stacks of images to chunked datasets (and back)
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•7•2•2•Updated Feb 3, 2026Feb 3, 2026

    • hipct-reg

      Public
      Code to register HiP-CT volumes of interest to full organ datasets
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•4•Updated Feb 2, 2026Feb 2, 2026

    • ng-slice-download

      Public
      Python
      •0•0•6•2•Updated Jan 30, 2026Jan 30, 2026

    • ngretrieve

      Public
      Python
      •
      MIT License
      •2•0•0•0•Updated Jan 28, 2026Jan 28, 2026

    • ngregister

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Jan 21, 2026Jan 21, 2026

    • Skeleton_analysis

      Public
      Perform skeletonisation fixes and then topological analysis
      MATLAB
      •1•3•3•0•Updated Jan 21, 2026Jan 21, 2026

    • n5-to-ome-zarr

      Public
      Convert N5 to OME-Zarr
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Jan 8, 2026Jan 8, 2026

    • rebin

      Public
      Re-bin stacks of JPEG2000 images to reduce their filesize and resolution
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•1•3•Updated Nov 24, 2025Nov 24, 2025

    • organ-masker

      Public
      A command-line tool for background segmentation of image volumes using SAM2
      Python
      •
      MIT License
      •2•1•4•0•Updated Nov 20, 2025Nov 20, 2025

    • upsample-zarr

      Public
      Upsample Zarr arrays
      Python
      •0•1•2•1•Updated Jun 5, 2025Jun 5, 2025

    • downsample-jp2s

      Public
      Script to create binned JPEG2000 datasets for HiP-CT data
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•0•2•0•Updated Oct 15, 2024Oct 15, 2024

    • Kaggle_skeleton_analyses

      Public
      This is a repository for the Kaggle skeleton analysis pipeline
      MATLAB
      •0•0•0•0•Updated Aug 12, 2024Aug 12, 2024

    • .github

      Public
      0•0•0•0•Updated May 21, 2024May 21, 2024

    • data-speeds

      Public
      Comparing image file I/O
      Python
      •0•0•0•0•Updated Apr 6, 2024Apr 6, 2024

    • Tomo_Recon

      Public archive
      MATLAB
      •
      GNU General Public License v3.0
      •0•9•0•0•Updated Jul 6, 2023Jul 6, 2023