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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 23 17

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

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

    Python 11 3

  3. aind-ephys-pipeline aind-ephys-pipeline Public

    AIND pipeline for processing extracellular electrophysiology data

    Nextflow 7 3

  4. segmentation-skeleton-metrics segmentation-skeleton-metrics Public

    A Python package for evaluating a predicted segmentation of neural arbors by using skeleton-based metrics. This tool detects topological mistakes (i.e. splits and merges) in a predicted segmentatio…

    Python 6

  5. parallax parallax Public

    GUI control software for the Modular Insertion System (MIS)

    Python 5 1

  6. TigerASI TigerASI Public

    a lightweight python interface for ASI brand Tiger Controllers

    Python 5 2

Repositories

Showing 10 of 318 repositories
  • aind-exaspim-soma-detection Public

    A Python package for detecting somas in ExaSPIM image datasets. Includes tools for image preprocessing and deep learning-based classification and training.

    AllenNeuralDynamics/aind-exaspim-soma-detection’s past year of commit activity
    Jupyter Notebook 1 MIT 0 0 0 Updated Jan 18, 2025
  • aind-qc-portal Public

    Quality control portal

    AllenNeuralDynamics/aind-qc-portal’s past year of commit activity
    Python 1 MIT 0 9 0 Updated Jan 18, 2025
  • aind-ephys-processing-qc Public

    CodeOcean Capsule for ephys quality control

    AllenNeuralDynamics/aind-ephys-processing-qc’s past year of commit activity
    Python 0 MIT 0 0 1 Updated Jan 18, 2025
  • voxel Public

    General purpose microscope control repository

    AllenNeuralDynamics/voxel’s past year of commit activity
    Python 4 MIT 4 13 0 Updated Jan 18, 2025
  • lamf_analysis_lims Public

    Dev site for testing analysis pipelines and qc for learning mFISH project. Anything related to 2p data (plus behavior and spatial transcriptomics)

    AllenNeuralDynamics/lamf_analysis_lims’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Jan 18, 2025
  • aind-ophys-extraction-suite2p Public

    Combines cellpose and suite2p to extract sources, i.e. ROIs and their traces.

    AllenNeuralDynamics/aind-ophys-extraction-suite2p’s past year of commit activity
    Python 0 MIT 0 3 0 Updated Jan 18, 2025
  • aind-data-schema Public

    A library that defines AIND data schema and validates JSON.

    AllenNeuralDynamics/aind-data-schema’s past year of commit activity
    Python 23 MIT 17 49 10 Updated Jan 18, 2025
  • aind-multiplane-ophys-pipeline-without-splitting Public
    AllenNeuralDynamics/aind-multiplane-ophys-pipeline-without-splitting’s past year of commit activity
    Nextflow 0 MIT 0 1 1 Updated Jan 18, 2025
  • Aind.Behavior.VrForaging Public

    Task implemention of VR Foraging experiment

    AllenNeuralDynamics/Aind.Behavior.VrForaging’s past year of commit activity
    C# 2 MIT 0 15 1 Updated Jan 18, 2025
  • Aind.Behavior.CookieCutter.Template Public

    A cookiecutter template for Aind.Behavior repositories

    AllenNeuralDynamics/Aind.Behavior.CookieCutter.Template’s past year of commit activity
    Python 0 MIT 0 2 0 Updated Jan 18, 2025
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