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@AllenNeuralDynamics

Allen Institute for Neural Dynamics

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  1. aind-data-schema aind-data-schema Public

    A library that defines AIND data schema and validates JSON.

    Python 26 17

  2. aind-ephys-pipeline aind-ephys-pipeline Public

    AIND pipeline for processing extracellular electrophysiology data

    Nextflow 13 6

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

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

    Python 12 3

  4. 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 12 12

  5. segmentation-skeleton-metrics segmentation-skeleton-metrics Public

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

    Python 8

  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 8 3

Repositories

Showing 10 of 466 repositories
  • aind-ephys-ibl-gui-conversion Public

    convert ephys data for use in ibl gui

    AllenNeuralDynamics/aind-ephys-ibl-gui-conversion’s past year of commit activity
    Python 0 MIT 1 1 0 Updated Sep 10, 2025
  • neurogabber Public

    Tall to embedded neuroglancer views with an LLM.

    AllenNeuralDynamics/neurogabber’s past year of commit activity
    Python 0 MIT 0 0 2 Updated Sep 10, 2025
  • aind-smartspim-ccf-registration Public

    Registration of lightsheet whole brain images to the Allen CCF V3 Atlas

    AllenNeuralDynamics/aind-smartspim-ccf-registration’s past year of commit activity
    Python 4 MIT 5 11 1 Updated Sep 10, 2025
  • aind-zarr-utils Public

    Utilities for working with ZARR files and AIND metadata

    AllenNeuralDynamics/aind-zarr-utils’s past year of commit activity
    Python 0 MIT 0 0 2 Updated Sep 10, 2025
  • parallax Public

    Automatic detection of probe position from multiple camera views

    AllenNeuralDynamics/parallax’s past year of commit activity
    Python 5 MIT 1 5 2 Updated Sep 10, 2025
  • aind-z1-camera-alignment Public

    Code to align spectrally adjacent channels in Zeiss Lightsheet 7 (Z1) datasets

    AllenNeuralDynamics/aind-z1-camera-alignment’s past year of commit activity
    Python 0 MIT 0 10 1 Updated Sep 10, 2025
  • aind-metadata-service Public

    Service to retrieve Labtracks/Sharepoint info using a REST API

    AllenNeuralDynamics/aind-metadata-service’s past year of commit activity
    Python 3 MIT 1 15 (2 issues need help) 2 Updated Sep 10, 2025
  • aind-dynamic-foraging-basic-analysis Public

    compute behavioral metrics and generate basic plottings for the dynamic foraging task

    AllenNeuralDynamics/aind-dynamic-foraging-basic-analysis’s past year of commit activity
    Python 0 MIT 0 18 1 Updated Sep 10, 2025
  • aind-data-transfer-service Public

    FastAPI service to run data compression and transfer jobs on the hpc

    AllenNeuralDynamics/aind-data-transfer-service’s past year of commit activity
    Python 3 MIT 0 8 (1 issue needs help) 0 Updated Sep 10, 2025
  • dynamic-foraging-task Public

    Bonsai/Harp workflow for Dynamic Foraging with Python GUI for visualization and control

    AllenNeuralDynamics/dynamic-foraging-task’s past year of commit activity
    Python 5 MIT 5 26 (4 issues need help) 9 Updated Sep 10, 2025