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@AllenInstitute

Allen Institute

Please visit http://alleninstitute.github.io/ for more information.

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  1. AllenSDK AllenSDK Public

    code for reading and processing Allen Institute for Brain Science data

    Jupyter Notebook 371 159

  2. dipde dipde Public

    Numerical solver for coupled population density equations

    Python 25 15

Repositories

Showing 10 of 450 repositories
  • spatial_compare Public

    package for comparing spatial transcriptomics datasets

    AllenInstitute/spatial_compare’s past year of commit activity
    Jupyter Notebook 6 8 11 7 Updated Dec 6, 2025
  • biofile-finder Public

    An open-use web application created for easy access, collaboration, and sharing of datasets through rich metadata search, filter, sort, and direct viewing in common industry applications or in our web-based 3D Volume Viewer.

    AllenInstitute/biofile-finder’s past year of commit activity
    TypeScript 15 BSD-3-Clause 3 74 5 Updated Dec 6, 2025
  • neuron-proofreader Public

    NeuronProofreader is a Python library for automated proofreading of split and merge mistakes in neuron reconstructions.

    AllenInstitute/neuron-proofreader’s past year of commit activity
    Python 6 MIT 0 0 0 Updated Dec 6, 2025
  • MIES Public

    Multichannel Igor Electrophysiology Suite

    AllenInstitute/MIES’s past year of commit activity
    IGOR Pro 30 9 270 11 Updated Dec 5, 2025
  • HMBA_BasalGanglia_Consensus_Taxonomy Public
    AllenInstitute/HMBA_BasalGanglia_Consensus_Taxonomy’s past year of commit activity
    SCSS 0 CC0-1.0 0 0 0 Updated Dec 4, 2025
  • deep_ccf_registration Public

    Arbitrary modality registration to CCFv3 using deep learning

    AllenInstitute/deep_ccf_registration’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Dec 4, 2025
  • Spatial-Transcriptomics-Processing-Pipeline Public
    AllenInstitute/Spatial-Transcriptomics-Processing-Pipeline’s past year of commit activity
    Nextflow 0 0 0 0 Updated Dec 4, 2025
  • cell_type_mapper Public

    Repository for storing prototype functionality implementations for the BKP

    AllenInstitute/cell_type_mapper’s past year of commit activity
    Python 38 7 5 2 Updated Dec 4, 2025
  • npc_lims Public

    Tools to fetch and update paths, metadata and state for Mindscope Neuropixels sessions, in the cloud.

    AllenInstitute/npc_lims’s past year of commit activity
    Python 0 MIT 1 3 0 Updated Dec 4, 2025
  • HebbsVision Public
    AllenInstitute/HebbsVision’s past year of commit activity
    Jupyter Notebook 2 0 0 0 Updated Dec 3, 2025
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