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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 78 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 33 13

  5. xarray-multiscale xarray-multiscale Public

    scalable multiscale image pyramids in python

    Python 26 3

  6. SharkViewer SharkViewer Public

    SharkViewer is a web-based viewer for SWC neuron files. It is written entirely in JavaScript using Three.js.

    JavaScript 24 11

Repositories

Showing 10 of 269 repositories
  • n5-universe Public Forked from saalfeldlab/n5-universe

    Functionality shared across all n5

    JaneliaSciComp/n5-universe’s past year of commit activity
    Java 0 BSD-2-Clause 5 0 0 Updated Jan 21, 2025
  • n5-utils Public Forked from saalfeldlab/n5-utils

    simple standalone BigDataViewer for multiple N5 (or HDF5) datasets

    JaneliaSciComp/n5-utils’s past year of commit activity
    Java 0 18 0 0 Updated Jan 21, 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 Jan 21, 2025
  • containers Public

    Containers for workflow plugins

    JaneliaSciComp/containers’s past year of commit activity
    Shell 0 BSD-3-Clause 0 0 0 Updated Jan 21, 2025
  • nextflow-modules Public

    Nextflow modules for use with nf-core tooling

    JaneliaSciComp/nextflow-modules’s past year of commit activity
    Nextflow 0 BSD-3-Clause 0 0 0 Updated Jan 21, 2025
  • jacs-storage Public

    JADE file storage services

    JaneliaSciComp/jacs-storage’s past year of commit activity
    Java 0 BSD-3-Clause 0 0 1 Updated Jan 21, 2025
  • workstation Public

    Janelia Workstation

    JaneliaSciComp/workstation’s past year of commit activity
    Java 24 11 0 12 Updated Jan 21, 2025
  • pydantic-ome-ngff Public

    Pydantic models for OME-NGFF

    JaneliaSciComp/pydantic-ome-ngff’s past year of commit activity
    Python 22 BSD-3-Clause 3 6 1 Updated Jan 20, 2025
  • exllsm-circuit-reconstruction Public

    Nextflow pipeline encapsulating workflows for analyzing expansion lattice light-sheet microscopy (ExLLSM) imagery

    JaneliaSciComp/exllsm-circuit-reconstruction’s past year of commit activity
    Nextflow 13 BSD-3-Clause 1 2 0 Updated Jan 19, 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 Jan 18, 2025
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