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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 33 10

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

    A library that defines AIND data schema and validates JSON.

    Python 31 20

  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 18 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 12 3

  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 11 4

Repositories

Showing 10 of 619 repositories
  • ophys-slap2-analysis Public

    Data reduction, preprocessing, and analysis for SLAP2 microscopes

    AllenNeuralDynamics/ophys-slap2-analysis’s past year of commit activity
    Jupyter Notebook 3 2 2 2 Updated Apr 19, 2026
  • AllenNeuralDynamics/aind-docker-images’s past year of commit activity
    Dockerfile 0 MIT 0 0 1 Updated Apr 19, 2026
  • exaspim-flatfield-correction Public

    Illumination correction library for large 3D images

    AllenNeuralDynamics/exaspim-flatfield-correction’s past year of commit activity
    Jupyter Notebook 3 0 4 0 Updated Apr 19, 2026
  • SLAy Public Forked from saikoukunt/SLAy
    AllenNeuralDynamics/SLAy’s past year of commit activity
    Python 0 3 0 0 Updated Apr 19, 2026
  • Aind.Behavior.VrForaging.Curricula Public

    A repository with curricula for the VrForaging platform

    AllenNeuralDynamics/Aind.Behavior.VrForaging.Curricula’s past year of commit activity
    Python 0 MIT 0 1 0 Updated Apr 19, 2026
  • ophys-passive-visual-stim Public

    Bonsai workflows for VCO passive visual stimulation used by AIND Ophys

    AllenNeuralDynamics/ophys-passive-visual-stim’s past year of commit activity
    GLSL 0 MIT 0 0 0 Updated Apr 19, 2026
  • aind-ophys-nwb Public

    Write NWB files for data generated with two-photon ophys pipelines (currently multiplane only)

    AllenNeuralDynamics/aind-ophys-nwb’s past year of commit activity
    Jupyter Notebook 1 MIT 0 9 2 Updated Apr 18, 2026
  • Aind.Behavior.Services Public

    A library for defining and maintaining behavior tasks.

    AllenNeuralDynamics/Aind.Behavior.Services’s past year of commit activity
    Python 1 MIT 0 2 1 Updated Apr 18, 2026
  • aind-behavior-curriculum Public

    Starter repository for behavior base primitives.

    AllenNeuralDynamics/aind-behavior-curriculum’s past year of commit activity
    Python 0 MIT 0 15 (1 issue needs help) 2 Updated Apr 18, 2026
  • voxel Public

    General purpose microscope control repository.

    AllenNeuralDynamics/voxel’s past year of commit activity
    Python 0 MIT 0 0 0 Updated Apr 18, 2026

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