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@AllenNeuralDynamics

Allen Institute for Neural Dynamics

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  1. aind-ephys-pipeline aind-ephys-pipeline Public

    AIND pipeline for processing extracellular electrophysiology data

    Nextflow 43 12

  2. aind-data-schema aind-data-schema Public

    A library that defines AIND data schema and validates JSON.

    Python 34 21

  3. openscope-community-predictive-processing openscope-community-predictive-processing Public

    This repository serves as a hub for community-driven contributions, documentation, and project tracking of the OpenScope Predictive Processing Community project.

    Python 28 13

  4. aind-ephys-spikesort-kilosort25-full aind-ephys-spikesort-kilosort25-full Public

    CodeOcean capsule for full electrophysiology analysis pipeline using Kilosort2.5 via SpikeInterface.

    Python 14 3

  5. supervoxel-loss supervoxel-loss Public

    Efficient connectivity-preserving loss function for training neural networks to perform instance segmentation.

    Python 13 2

  6. ibl-ephys-alignment-gui ibl-ephys-alignment-gui Public

    Forked from int-brain-lab/iblapps

    Tool for aligning electrophysiological features to anatomical landmarks

    Python 12 5

Repositories

Showing 10 of 715 repositories
  • openscope-community-predictive-processing Public

    This repository serves as a hub for community-driven contributions, documentation, and project tracking of the OpenScope Predictive Processing Community project.

    AllenNeuralDynamics/openscope-community-predictive-processing's past year of commit activity
    Python 28 MIT 13 32 2 Updated Oct 19, 2026
  • zephyr Public

    A network to predict breathing signals from video

    AllenNeuralDynamics/zephyr's past year of commit activity
    Python 0 MIT 0 2 1 Updated Oct 19, 2026
  • ComputationalReviewTemplate Public template

    A repository to start computational reviews with AI

    AllenNeuralDynamics/ComputationalReviewTemplate's past year of commit activity
    JavaScript 8 MIT 3 0 1 Updated Oct 19, 2026
  • AllenNeuralDynamics/aind-fiber-photometry-pipeline's past year of commit activity
    Nextflow 0 MIT 0 6 1 Updated Oct 19, 2026
  • AllenNeuralDynamics/ComputationalReviewSSTdisease's past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Oct 19, 2026
  • aind-pophys-pipeline Public

    2P planar optical physiology processing pipeline

    AllenNeuralDynamics/aind-pophys-pipeline's past year of commit activity
    Nextflow 0 MIT 0 5 1 Updated Oct 18, 2026
  • AllenNeuralDynamics/aind-ophys-classifier's past year of commit activity
    Python 0 MIT 0 1 2 Updated Oct 18, 2026
  • aind-fip-dff Public

    This capsule takes an input raw NWB file of fiber data and creates processed DFF traces

    AllenNeuralDynamics/aind-fip-dff's past year of commit activity
    Python 0 MIT 1 5 2 Updated Oct 18, 2026
  • aind-ophys-extraction Public

    Uses a mix-and-match approach to combine Cellpose, Suite2p, and CaImAn for cell detection and signal extraction.

    AllenNeuralDynamics/aind-ophys-extraction's past year of commit activity
    Python 0 MIT 1 3 3 Updated Oct 18, 2026
  • AllenNeuralDynamics/aind-ophys-decrosstalk-roi-images's past year of commit activity
    Python 0 MIT 0 10 2 Updated Oct 18, 2026