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@khanlab

Khan Computational Imaging Lab

  • 22 followers
  • Robarts Research Institute, Western University, London, Canada

Popular repositories Loading

  1. hippunfold hippunfold Public

    BIDS App for Hippunfold (automated hippocampal unfolding and subfield segmentation)

    Python 64 22

  2. snakebids snakebids Public

    Snakemake + BIDS

    Python 22 16

  3. zarrnii zarrnii Public

    Package for working with OME-Zarr and NIFTI images in a unified manner, with a focus on spatial transformations

    Python 9 4

  4. tar2bids tar2bids Public

    Python 8 9

  5. mp2rage_genUniDen mp2rage_genUniDen Public

    Generates UNI-DEN image from UNI, Inv1 and Inv2 images

    MATLAB 6 1

  6. scattr scattr Public

    BIDS app for structural connectivity between targeted regions

    Python 6 5

Repositories

Showing 10 of 130 repositories
  • FireANTs Public Forked from rohitrango/FireANTs

    Adaptive Riemannian Optimization for Multi-Scale Diffeomorphic Registration

    khanlab/FireANTs’s past year of commit activity
    Python 0 22 0 1 Updated Feb 25, 2026
  • cfmm2tar Public

    Tools for dicom-server retrieval, tarballing and conversion to bids

    khanlab/cfmm2tar’s past year of commit activity
    Python 4 GPL-3.0 4 1 0 Updated Feb 25, 2026
  • SPIMprep Public

    A Snakemake workflow for pre-processing single plane illumination microscopy (SPIM, aka lightsheet microscopy)

    khanlab/SPIMprep’s past year of commit activity
    Python 5 MIT 2 9 (3 issues need help) 3 Updated Feb 24, 2026
  • snakebids Public

    Snakemake + BIDS

    khanlab/snakebids’s past year of commit activity
    Python 22 MIT 16 25 7 Updated Feb 24, 2026
  • SPIMquant Public

    SnakeBIDS app for quantitative analysis of SPIM (lightsheet) brain data

    khanlab/SPIMquant’s past year of commit activity
    Python 4 2 5 5 Updated Feb 24, 2026
  • SPIMtemplates Public
    khanlab/SPIMtemplates’s past year of commit activity
    Python 0 0 0 0 Updated Feb 24, 2026
  • zarrnii Public

    Package for working with OME-Zarr and NIFTI images in a unified manner, with a focus on spatial transformations

    khanlab/zarrnii’s past year of commit activity
    Python 9 4 3 9 Updated Feb 20, 2026
  • cfmm2bids Public

    Snakemake workflow for pulling cfmm dicom server data into bids

    khanlab/cfmm2bids’s past year of commit activity
    Python 0 1 1 4 Updated Feb 20, 2026
  • heudiconv Public Forked from nipy/heudiconv

    Flexible DICOM conversion into structured directory layouts

    khanlab/heudiconv’s past year of commit activity
    Python 0 137 0 0 Updated Feb 20, 2026
  • vesselFM Public Forked from bwittmann/vesselFM

    A foundation model for universal 3D blood vessel segmentation. Paper accepted @ CVPR25.

    khanlab/vesselFM’s past year of commit activity
    Python 0 GPL-3.0 22 0 1 Updated Feb 19, 2026
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Most used topics

mri python bids