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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 81 21

  2. NIDAQ.jl NIDAQ.jl Public

    National Instruments Data Acquisition Interface

    Julia 47 16

  3. JRCLUST JRCLUST Public

    JRCLUST

    MATLAB 34 22

  4. multifish multifish Public

    EASI-FISH analysis pipeline for spatial transcriptomics

    Jupyter Notebook 34 13

  5. xarray-multiscale xarray-multiscale Public

    scalable multiscale image pyramids in python

    Python 27 3

  6. BigStitcher-Spark BigStitcher-Spark Public

    Running compute-intense parts of BigStitcher distributed

    Java 25 13

Repositories

Showing 10 of 275 repositories
  • EM_recon_pipeline Public

    Pipeline scripts and tools for reconstructing Electron Microscopy volumes.

    Python 3 BSD-3-Clause 3 0 3 Updated Mar 27, 2025
  • fileglancer Public

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

    TypeScript 0 BSD-3-Clause 0 0 0 Updated Mar 27, 2025
  • BigStitcher-Spark Public

    Running compute-intense parts of BigStitcher distributed

    Java 25 BSD-2-Clause 13 15 0 Updated Mar 27, 2025
  • hortacloud Public

    HortaCloud - 3D annotation platform for large microscopy data

    JavaScript 10 BSD-3-Clause 1 47 (1 issue needs help) 0 Updated Mar 27, 2025
  • workstation Public

    Janelia Workstation

    Java 23 11 0 14 Updated Mar 27, 2025
  • jacs-cm Public

    JACS Configuration Management

    XSLT 8 3 17 3 Updated Mar 26, 2025
  • fileglancer-central Public

    Central metadata server for Fileglancer deployments

    Python 0 BSD-3-Clause 0 0 0 Updated Mar 25, 2025
  • jacs-compute Public

    JAnelia Compute Services (JACS)

    Java 1 BSD-3-Clause 0 0 0 Updated Mar 25, 2025
  • JavaScript 0 BSD-3-Clause 0 0 0 Updated Mar 25, 2025
  • FunkeAnnotation Public

    Small tool to annotate images

    Java 1 0 1 0 Updated Mar 24, 2025

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