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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 48 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 28 3

  6. BigStitcher-Spark BigStitcher-Spark Public

    Running compute-intense parts of BigStitcher distributed

    Java 26 13

Repositories

Showing 10 of 287 repositories
  • fileglancer Public

    Browse, share, and publish data in the Janelia file system

    JaneliaSciComp/fileglancer’s past year of commit activity
    TypeScript 1 BSD-3-Clause 0 0 5 Updated Sep 9, 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 Sep 9, 2025
  • videoAnnotation Public
    JaneliaSciComp/videoAnnotation’s past year of commit activity
    JavaScript 2 BSD-3-Clause 0 0 2 Updated Sep 9, 2025
  • fileglancer-central Public

    Central metadata server for Fileglancer deployments

    JaneliaSciComp/fileglancer-central’s past year of commit activity
    Python 0 BSD-3-Clause 0 0 1 Updated Sep 9, 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 Sep 9, 2025
  • bigstream Public

    Tools for distributed alignment of massive images

    JaneliaSciComp/bigstream’s past year of commit activity
    Jupyter Notebook 86 BSD-3-Clause 21 13 4 Updated Sep 9, 2025
  • easifish Public
    JaneliaSciComp/easifish’s past year of commit activity
    Nextflow 0 BSD-3-Clause 0 0 0 Updated Sep 9, 2025
  • nf-cellpose Public

    Nextflow pipeline for cellpose segmentation

    JaneliaSciComp/nf-cellpose’s past year of commit activity
    Nextflow 0 MIT 0 0 0 Updated Sep 8, 2025
  • BigStitcher-Spark Public

    Running compute-intense parts of BigStitcher distributed

    JaneliaSciComp/BigStitcher-Spark’s past year of commit activity
    Java 26 BSD-2-Clause 13 16 2 Updated Sep 8, 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 Sep 8, 2025
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