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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
  • nmcp-deploy Public
    AllenNeuralDynamics/nmcp-deploy’s past year of commit activity
    Shell 0 0 0 0 Updated Jan 21, 2025
  • metadata-chatbot Public

    LLM (Anthropic Claude) based chatbot that can query, ingest and summarize metadata in a conversational form

    AllenNeuralDynamics/metadata-chatbot’s past year of commit activity
    Python 2 MIT 0 19 0 Updated Jan 20, 2025
  • aind-ephys-preprocessing Public

    CodeOcean capsule for ephys preprocessing

    AllenNeuralDynamics/aind-ephys-preprocessing’s past year of commit activity
    Python 1 MIT 0 0 0 Updated Jan 20, 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 19, 2025
  • exaspim-control Public
    AllenNeuralDynamics/exaspim-control’s past year of commit activity
    Python 1 MIT 1 3 0 Updated Jan 19, 2025
  • voxel Public

    General purpose microscope control repository

    AllenNeuralDynamics/voxel’s past year of commit activity
    Python 4 MIT 4 13 0 Updated Jan 19, 2025
  • AIND-ophys-mFISH-design-matrix Public

    Building design matrices for ophys-mFISH datasets from AIND

    AllenNeuralDynamics/AIND-ophys-mFISH-design-matrix’s past year of commit activity
    Python 0 MIT 0 0 1 Updated Jan 19, 2025
  • aind_su_etal_2022 Public

    Migrated code from matlab to Python in su_etal_2022

    AllenNeuralDynamics/aind_su_etal_2022’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Jan 19, 2025
  • 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-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
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