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@khanlab

Khan Computational Imaging Lab

  • 12 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 47 13

  2. snakebids snakebids Public

    Snakemake + BIDS

    Python 17 13

  3. tar2bids tar2bids Public

    Python 7 9

  4. neuroglia-helpers neuroglia-helpers Public

    Helper and wrapper scripts for using Singularity locally and on compute canada

    Shell 5 7

  5. autobids autobids Public archive

    Automated Dicom to BIDS and pipelines using compute canada

    Shell 5 4

  6. bids-tutorial bids-tutorial Public

    Tutorial on BIDS - Methods Lunch Feb 12

    5

Repositories

Showing 10 of 112 repositories
  • khanlab.github.io Public

    Khan Lab website

    khanlab/khanlab.github.io’s past year of commit activity
    HTML 2 10 1 2 Updated Oct 18, 2024
  • SPIMquant Public

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

    khanlab/SPIMquant’s past year of commit activity
    Python 1 0 1 3 Updated Oct 17, 2024
  • 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
    Jupyter Notebook 1 1 1 0 Updated Oct 14, 2024
  • cvpl_tools Public

    A Python package for utilities and classes related to the file I/O, dataset record keeping for image processing and computer vision.

    khanlab/cvpl_tools’s past year of commit activity
    Python 0 MIT 0 1 0 Updated Oct 10, 2024
  • 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 2 MIT 1 10 (4 issues need help) 2 Updated Oct 8, 2024
  • snakebids Public

    Snakemake + BIDS

    khanlab/snakebids’s past year of commit activity
    Python 17 MIT 13 21 3 Updated Oct 2, 2024
  • gcnn_dmri Public
    khanlab/gcnn_dmri’s past year of commit activity
    Python 1 MIT 0 0 1 Updated Oct 1, 2024
  • LOBE_analysis Public

    Snakemake workflow for LOBE study

    khanlab/LOBE_analysis’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Sep 30, 2024
  • trident-datamgmt-scripts Public

    Various scripts for TRIDENT data management

    khanlab/trident-datamgmt-scripts’s past year of commit activity
    Shell 0 MIT 0 0 0 Updated Sep 30, 2024
  • hippunfold-train-finetune Public

    Workflow for training nnUnet with pre-existing weights

    khanlab/hippunfold-train-finetune’s past year of commit activity
    Python 0 0 0 0 Updated Sep 30, 2024
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