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@JaneliaSciComp

Howard Hughes Medical Institute

GitHub organization maintained by Scientific Computing Software at HHMI's Janelia Research Campus for use by HHMI staff and external collaborators.

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  1. bigstream bigstream Public

    Tools for distributed alignment of massive images

    Jupyter Notebook 86 21

  2. NIDAQ.jl NIDAQ.jl Public

    National Instruments Data Acquisition Interface

    Julia 49 16

  3. JRCLUST JRCLUST Public

    JRCLUST

    MATLAB 35 22

  4. multifish multifish Public

    EASI-FISH analysis pipeline for spatial transcriptomics

    Jupyter Notebook 35 13

  5. xarray-multiscale xarray-multiscale Public

    scalable multiscale image pyramids in python

    Python 29 3

  6. BigStitcher-Spark BigStitcher-Spark Public

    Running compute-intense parts of BigStitcher distributed

    Java 27 14

Repositories

Showing 10 of 292 repositories
  • ossi-website Public

    Website showcasing Janelia Open Science Software Intiative (OSSI) supported software projects and other software developed at Janelia.

    JaneliaSciComp/ossi-website’s past year of commit activity
    Astro 1 BSD-3-Clause 20 16 2 Updated Oct 2, 2025
  • EM_recon_pipeline Public

    Pipeline scripts and tools for reconstructing Electron Microscopy volumes.

    JaneliaSciComp/EM_recon_pipeline’s past year of commit activity
    Python 3 BSD-3-Clause 3 0 3 Updated Oct 2, 2025
  • tensorswitch Public

    This package provides a unified entry point and organized task modules for managing N5/Zarr dataset conversions and downsampling. It centralizes your workflow into a single pipeline to reduce manual work and errors.

    JaneliaSciComp/tensorswitch’s past year of commit activity
    Python 5 BSD-3-Clause 0 0 1 Updated Oct 2, 2025
  • fileglancer-user-docs Public

    Fileglancer user documentation site

    JaneliaSciComp/fileglancer-user-docs’s past year of commit activity
    MDX 0 BSD-3-Clause 0 0 1 Updated Oct 2, 2025
  • neuronbridge-precompute Public

    Utilities for indexing and transferring of NeuronBridge-related files

    JaneliaSciComp/neuronbridge-precompute’s past year of commit activity
    Python 0 BSD-3-Clause 0 0 0 Updated Oct 1, 2025
  • zarrcade Public

    Create web-based OME-Zarr galleries

    JaneliaSciComp/zarrcade’s past year of commit activity
    Jupyter Notebook 19 BSD-3-Clause 0 3 0 Updated Oct 1, 2025
  • colormipsearch Public

    Distributed Color Depth MIP Search

    JaneliaSciComp/colormipsearch’s past year of commit activity
    Java 2 BSD-3-Clause 1 0 2 Updated Oct 1, 2025
  • fileglancer Public

    Browse, share, and publish OME-Zarr data

    JaneliaSciComp/fileglancer’s past year of commit activity
    TypeScript 1 BSD-3-Clause 2 0 4 Updated Oct 1, 2025
  • PEELing_web Public
    JaneliaSciComp/PEELing_web’s past year of commit activity
    JavaScript 0 BSD-3-Clause 0 0 0 Updated Sep 30, 2025
  • viv Public Forked from hms-dbmi/viv

    Library for multiscale visualization of high-resolution multiplexed bioimaging data on the web. Directly renders Zarr and OME-TIFF.

    JaneliaSciComp/viv’s past year of commit activity
    JavaScript 0 MIT 54 0 0 Updated Sep 30, 2025
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