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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 354 152

  2. dipde dipde Public

    Numerical solver for coupled population density equations

    Python 23 14

Repositories

Showing 10 of 419 repositories
  • compute_motion_energy Public

    Step 2 of Behavior Video QC pipeline. Loads video Barr files and computes motion energy in 3d and

    AllenInstitute/compute_motion_energy’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Mar 11, 2025
  • behavior_video_qc_visualization Public

    Part of behavior video qc pipeline. Collects results from descriptive statistics, motion energy, and PCA capsules to plot them for qc visualization

    AllenInstitute/behavior_video_qc_visualization’s past year of commit activity
    0 0 0 0 Updated Mar 11, 2025
  • load_behavior_video Public

    First step in behavior video QC pipeline. Loads attached videos, saves gray frames in zarr file, saves metadata.

    AllenInstitute/load_behavior_video’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Mar 11, 2025
  • motion_energy_PCA Public
    AllenInstitute/motion_energy_PCA’s past year of commit activity
    Jupyter Notebook 1 0 0 0 Updated Mar 11, 2025
  • deep-neurographs Public

    A Python package that corrects split mistakes in a fragmented neuron segmentation using a graph neural network.

    AllenInstitute/deep-neurographs’s past year of commit activity
    Python 3 MIT 0 0 0 Updated Mar 11, 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 6 BSD-3-Clause 2 52 7 Updated Mar 11, 2025
  • MapMySections Public

    GitHub starting page for the MapMySections data challenge

    AllenInstitute/MapMySections’s past year of commit activity
    HTML 1 BSD-2-Clause 0 0 0 Updated Mar 10, 2025
  • 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 59 24 13 6 Updated Mar 10, 2025
  • ACE Public

    R Shiny app for comparison of annotations (e.g., cell type assignments)

    AllenInstitute/ACE’s past year of commit activity
    R 1 1 10 (1 issue needs help) 0 Updated Mar 10, 2025
  • openscope_databook Public

    OpenScope databook: a collaborative, versioned, data-centric collection of foundational analyses for reproducible systems neuroscience 🐁🧠🔬🖥️📈

    AllenInstitute/openscope_databook’s past year of commit activity
    Python 64 21 13 0 Updated Mar 10, 2025
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