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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 374 160

  2. dipde dipde Public

    Numerical solver for coupled population density equations

    Python 25 15

Repositories

Showing 10 of 460 repositories
  • 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 Jan 24, 2026
  • 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 Jan 24, 2026
  • spots-in-space Public

    spatial transcriptomics analysis

    AllenInstitute/spots-in-space’s past year of commit activity
    Python 2 0 14 2 Updated Jan 24, 2026
  • cell_type_mapper Public

    Repository for storing prototype functionality implementations for the BKP

    AllenInstitute/cell_type_mapper’s past year of commit activity
    Python 42 8 5 2 Updated Jan 23, 2026
  • MIES Public

    Multichannel Igor Electrophysiology Suite

    AllenInstitute/MIES’s past year of commit activity
    IGOR Pro 29 9 269 13 Updated Jan 23, 2026
  • npc_sessions Public

    Tools for accessing and packaging data from behavior and epyhys sessions from the Mindscope Neuropixels team, in the cloud.

    AllenInstitute/npc_sessions’s past year of commit activity
    Python 2 1 54 (3 issues need help) 0 Updated Jan 23, 2026
  • 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 4 79 2 Updated Jan 23, 2026
  • npc_sessions_cache Public

    Scripts, notebooks and plots that operate on NWB or NWB-like objects from `npc_sessions` in the cloud.

    AllenInstitute/npc_sessions_cache’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Jan 23, 2026
  • abc_atlas_access Public

    Documentation and examples demonstrating how to access data from the Allen Brain Cell Atlas

    AllenInstitute/abc_atlas_access’s past year of commit activity
    Jupyter Notebook 96 33 19 6 Updated Jan 22, 2026
  • dynamic_routing_analysis Public

    Tools for accessing, processing and presenting data from Dynamic Routing experiments.

    AllenInstitute/dynamic_routing_analysis’s past year of commit activity
    Jupyter Notebook 2 0 0 0 Updated Jan 22, 2026