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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 91 22

  2. BigStitcher BigStitcher Public

    ImgLib2/BDV implementation of Stitching for large datasets

    Java 78 17

  3. NIDAQ.jl NIDAQ.jl Public

    National Instruments Data Acquisition Interface

    Julia 49 16

  4. JRCLUST JRCLUST Public

    JRCLUST

    MATLAB 35 22

  5. multifish multifish Public

    EASI-FISH analysis pipeline for spatial transcriptomics

    Jupyter Notebook 35 13

  6. multiview-reconstruction multiview-reconstruction Public

    Software for the reconstruction of multi-view microscopic acquisitions like Selective Plane Illumination Microscopy (SPIM) Data

    Java 31 24

Repositories

Showing 10 of 302 repositories
  • fileglancer Public

    Browse, share, and publish OME-Zarr data

    JaneliaSciComp/fileglancer’s past year of commit activity
    TypeScript 17 BSD-3-Clause 2 2 8 Updated Jan 8, 2026
  • dis-utilities Public

    Utilities for Data and Information Services

    JaneliaSciComp/dis-utilities’s past year of commit activity
    JavaScript 2 BSD-3-Clause 1 14 1 Updated Jan 8, 2026
  • doi_common Public

    Library of common DOI-related functions for Python

    JaneliaSciComp/doi_common’s past year of commit activity
    Python 0 BSD-3-Clause 0 0 0 Updated Jan 8, 2026
  • 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 Jan 8, 2026
  • colormipsearch Public

    Distributed Color Depth MIP Search

    JaneliaSciComp/colormipsearch’s past year of commit activity
    Java 2 BSD-3-Clause 1 0 2 Updated Jan 8, 2026
  • jrc-rna-structure-pipeline Public

    Workflow to extract, process, and curate RNA 3D structural data from PDB for structure prediction tasks

    JaneliaSciComp/jrc-rna-structure-pipeline’s past year of commit activity
    Python 1 BSD-3-Clause 0 0 0 Updated Jan 8, 2026
  • pppm-website Public

    PatchPerPix Match website

    JaneliaSciComp/pppm-website’s past year of commit activity
    JavaScript 0 BSD-3-Clause 0 0 0 Updated Jan 8, 2026
  • multiview-reconstruction Public

    Software for the reconstruction of multi-view microscopic acquisitions like Selective Plane Illumination Microscopy (SPIM) Data

    JaneliaSciComp/multiview-reconstruction’s past year of commit activity
    Java 31 GPL-2.0 24 29 6 Updated Jan 8, 2026
  • easifish-spots-tools Public

    Various tools used by EASI-FISH pipeline for processing spots

    JaneliaSciComp/easifish-spots-tools’s past year of commit activity
    Python 0 0 0 0 Updated Jan 7, 2026
  • jacs-cm Public

    JACS Configuration Management

    JaneliaSciComp/jacs-cm’s past year of commit activity
    XSLT 8 2 17 3 Updated Jan 7, 2026
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