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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 42 11

  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 27 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 4

Repositories

Showing 10 of 702 repositories
  • LC-beh-physiology-analysis Public
    AllenNeuralDynamics/LC-beh-physiology-analysis's past year of commit activity
    Jupyter Notebook 1 MIT 1 0 0 Updated Sep 28, 2026
  • 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 27 MIT 13 32 2 Updated Sep 28, 2026
  • breathing-codabench-challenge Public
    AllenNeuralDynamics/breathing-codabench-challenge's past year of commit activity
    Python 0 1 1 0 Updated Sep 27, 2026
  • zephyr Public

    CNN and temporal network for breathing prediction from video

    AllenNeuralDynamics/zephyr's past year of commit activity
    Python 0 MIT 0 1 0 Updated Sep 27, 2026
  • clabe Public

    Command-line-interface Launcher for AIND Behavior Experiments

    AllenNeuralDynamics/clabe's past year of commit activity
    Python 0 MIT 0 5 1 Updated Sep 27, 2026
  • dynamicrouting-behavior-video-processing-capsule-dispatch Public
    AllenNeuralDynamics/dynamicrouting-behavior-video-processing-capsule-dispatch's past year of commit activity
    Python 0 MIT 0 0 0 Updated Sep 26, 2026
  • segmentation-skeleton-metrics Public

    A Python package for evaluating the topological accuracy of a neuron segmentation by computing skeleton-based metrics.

    AllenNeuralDynamics/segmentation-skeleton-metrics's past year of commit activity
    Python 10 MIT 0 0 0 Updated Sep 26, 2026
  • hcr-unmix-to-cells Public

    A capsule to be run on HCR data after it has been processed by main the pipeline. Can run alternate unmixing strategies and generate cell x gene tables annotated with cell labels (e.g. de novo clustering or taxonomy mapping).

    AllenNeuralDynamics/hcr-unmix-to-cells's past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Sep 26, 2026
  • aind-file-standards Public

    This repository contains the file standards for the Allen Institute for Neural Dynamics

    AllenNeuralDynamics/aind-file-standards's past year of commit activity
    0 MIT 0 11 7 Updated Sep 26, 2026
  • Aind.Physiology.Fip Public

    A repository with a Fiber Photometry acquisition pipeline

    AllenNeuralDynamics/Aind.Physiology.Fip's past year of commit activity
    C# 0 MIT 0 10 2 Updated Sep 26, 2026
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