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    626 repositories

    • aind-ephys-preprocessing

      Public
      CodeOcean capsule for ephys preprocessing
      Python
      •
      MIT License
      •2•2•2•2•Updated May 5, 2026May 5, 2026

    • aind-ephys-results-collector

      Public
      Code Ocean capsule for result collection
      Python
      •
      MIT License
      •2•0•1•3•Updated May 5, 2026May 5, 2026

    • GIAnT-MATLAB

      Public
      Glutamate Imaging Analysis Toolbox, MATLAB implementation
      0•0•0•0•Updated May 5, 2026May 5, 2026

    • aind-ephys-transformation

      Public
      Code to compress ephys data
      Python
      •
      MIT License
      •1•0•3•0•Updated May 5, 2026May 5, 2026

    • conect-dev-capsule

      Public
      Jupyter Notebook
      •
      MIT License
      •0•0•0•0•Updated May 5, 2026May 5, 2026

    • zombie

      Public
      JavaScript
      •
      MIT License
      •1•0•6•1•Updated May 5, 2026May 5, 2026

    • aind-metadata-viz

      Public
      Website for public metadata visualization
      Python
      •
      MIT License
      •1•0•3•0•Updated May 5, 2026May 5, 2026

    • lamf-analysis

      Public
      Place for scientists & engineers on ophys-mFish projects (Learning mFISH, omFISH) to put ophys data processing development code, especially as a place to ease t…
      Jupyter Notebook
      •
      MIT License
      •1•1•21•1•Updated May 5, 2026May 5, 2026

    • posetail

      Public
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•0•0•Updated May 5, 2026May 5, 2026

    • aind-disrnn-wrapper

      Public
      Job wrapper for AIND-disRNN project
      Python
      •
      MIT License
      •1•0•10•2•Updated May 5, 2026May 5, 2026

    • Aind.Behavior.VrForaging

      Public
      Task implemention of VR Foraging experiment
      aind-behavior
      aind-behavior
      C#
      •
      MIT License
      •0•3•9•0•Updated May 4, 2026May 4, 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…
      Python
      •
      MIT License
      •13•20•32•0•Updated May 4, 2026May 4, 2026

    • package-brain-atlas-assets

      Public
      Reorganize various brain atlas data assets into a standard organization and metadata convention.
      Python
      •
      MIT License
      •0•0•2•3•Updated May 4, 2026May 4, 2026

    • aind-torch-utils

      Public
      Generic, queue-based, multi-GPU PyTorch inference pipeline for large volumetric (3D or 5D T,C,Z,Y,X) data.
      machine-learningcomputer-visionimage-processing
      machine-learningcomputer-visionimage-processingartificial-intelligencescientific-computing
      Python
      •
      MIT License
      •0•1•1•2•Updated May 4, 2026May 4, 2026

    • Aind.Behavior.DynamicForaging

      Public
      A repository for the Dynamic Foraging task.
      C#
      •
      MIT License
      •0•0•8•3•Updated May 4, 2026May 4, 2026

    • aind-software-docs

      Public
      Centralized documentation repository for Scientific Computing, publishes to RTD
      Python
      •
      MIT License
      •0•1•33•10•Updated May 4, 2026May 4, 2026

    • aind-vast-utils

      Public
      Wrapper around VAST API to help report metrics
      Python
      •
      MIT License
      •0•0•0•0•Updated May 4, 2026May 4, 2026

    • 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.
      cell-detectionlightsheet-microscopy
      cell-detectionlightsheet-microscopy
      Jupyter Notebook
      •
      MIT License
      •0•3•0•1•Updated May 4, 2026May 4, 2026

    • exaspim-sam

      Public
      Unified data annotation, training and inference for SAM on ExaSPIM
      Python
      •0•0•0•0•Updated May 4, 2026May 4, 2026

    • meso-prepare-transfer

      Public
      Python
      •
      MIT License
      •0•1•3•1•Updated May 4, 2026May 4, 2026

    • aind-metadata-upgrader

      Public
      Upgrade JSON metadata from old versions of aind-data-schema
      Python
      •
      MIT License
      •2•1•5•3•Updated May 4, 2026May 4, 2026

    • mesoscale-cell-classification-head

      Public
      Cell classification head for mesoscale resolution using a 3D foundational image encoder
      Python
      •
      MIT License
      •0•0•0•0•Updated May 4, 2026May 4, 2026

    • aind-data-transfer-service

      Public
      FastAPI service to run data compression and transfer jobs on the hpc
      aind-data-infrastructure
      aind-data-infrastructure
      Python
      •
      MIT License
      •0•3•4•0•Updated May 4, 2026May 4, 2026

    • aind-data-schema

      Public
      A library that defines AIND data schema and validates JSON.
      aind-core-services
      aind-core-services
      Python
      •
      MIT License
      •20•31•50•5•Updated May 4, 2026May 4, 2026

    • aind-metadata-manager

      Public
      Metadata manager for pipeline to ensure metadata are in derived assets
      Python
      •
      MIT License
      •0•0•4•4•Updated May 4, 2026May 4, 2026

    • biodata-registry-sandbox

      Public
      Sandbox for exploring registry options
      Python
      •0•0•9•0•Updated May 4, 2026May 4, 2026

    • aind-ephys-pipeline

      Public
      AIND pipeline for processing extracellular electrophysiology data
      Nextflow
      •
      MIT License
      •11•34•16•2•Updated May 4, 2026May 4, 2026

    • nmcp-client

      Public
      TypeScript
      •
      Other
      •0•0•5•0•Updated May 4, 2026May 4, 2026

    • nmcp-api

      Public
      TypeScript
      •
      Other
      •0•0•0•0•Updated May 4, 2026May 4, 2026

    • nmcp-deploy

      Public
      Shell
      •0•0•0•0•Updated May 4, 2026May 4, 2026
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