Repositories list

• aind-data-schema-models

  Public
  Data models used in aind-data-schema

  Python

  •

  MIT License

  •2•0•6•3•Updated Jan 17, 2025Jan 17, 2025

• aind-data-schema

  Public
  A library that defines AIND data schema and validates JSON.

  aind-core-services

  Python

  •

  MIT License

  •17•23•49•10•Updated Jan 17, 2025Jan 17, 2025

• aind-session

  Public
  User-friendly tools for accessing paths, metadata and assets related to AIND sessions

  Python

  •

  MIT License

  •0•0•2•0•Updated Jan 17, 2025Jan 17, 2025

• dynamicrouting-encoding-fit

  Public
  Python

  •

  MIT License

  •0•0•0•0•Updated Jan 17, 2025Jan 17, 2025

• dynamicrouting-encoding-io

  Public
  Python

  •

  MIT License

  •0•0•0•0•Updated Jan 17, 2025Jan 17, 2025

• dynamicrouting-encoding-pipeline

  Public
  Nextflow

  •

  MIT License

  •0•0•0•0•Updated Jan 17, 2025Jan 17, 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.

  Jupyter Notebook

  •

  MIT License

  •0•1•0•0•Updated Jan 17, 2025Jan 17, 2025

• harp.device.lickety-split

  Public
  an ephys-compliant capacitive lick detector

  harp

  C++

  •

  MIT License

  •0•0•20•0•Updated Jan 17, 2025Jan 17, 2025

• aind-ephys-rig-qc

  Public
  Post-experiment temporal alignment and quality control

  Python

  •

  MIT License

  •1•0•0•0•Updated Jan 17, 2025Jan 17, 2025

• aind-multiplane-ophys-pipeline-without-splitting

  Public
  Nextflow

  •

  MIT License

  •0•0•1•1•Updated Jan 17, 2025Jan 17, 2025

• Aind.Behavior.GitHubActions

  Public
  A repository with reusable github actions

  aind-behavior

  MIT License

  •0•0•0•0•Updated Jan 17, 2025Jan 17, 2025

• Aind.Behavior.VideoEncodingBenchmarks

  Public
  A repository with code for benchmarking online video acquisition/encoding pipelines

  aind-behavior

  C#

  •

  MIT License

  •0•0•2•0•Updated Jan 17, 2025Jan 17, 2025

• aind-multiplane-ophys-pipeline

  Public
  Nextflow

  •

  MIT License

  •0•0•4•0•Updated Jan 17, 2025Jan 17, 2025

• Aind.Behavior.ForceForaging

  Public
  A repository for the aind-force-foraging experiment

  aind-behavior

  C#

  •

  MIT License

  •0•1•5•1•Updated Jan 17, 2025Jan 17, 2025

• aind-codeocean-utils

  Public
  Repository to facilitate interfacing with Code Ocean's index

  Python

  •

  MIT License

  •0•0•5•1•Updated Jan 17, 2025Jan 17, 2025

• aind-metadata-service

  Public
  Service to retrieve Labtracks/Sharepoint info using a REST API

  aind-core-servicesaind-deploy-services

  Python

  •

  MIT License

  •1•3•15•1•Updated Jan 17, 2025Jan 17, 2025

• Aind.Behavior.VrForaging

  Public
  Task implemention of VR Foraging experiment

  aind-behavior

  C#

  •

  MIT License

  •0•2•16•1•Updated Jan 17, 2025Jan 17, 2025

• Bonsai.AllenNeuralDynamics

  Public
  A Bonsai package for version control and manipulation of Git repositories

  bonsai-rxaind-behavior

  C#

  •

  Other

  •0•0•7•0•Updated Jan 17, 2025Jan 17, 2025

• dynamic-foraging-task

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

  Python

  •

  MIT License

  •4•5•103•8•Updated Jan 16, 2025Jan 16, 2025

• aind-fip-dff

  Public
  This capsule takes an input raw NWB file of fiber data and creates processed DFF traces

  Python

  •

  MIT License

  •0•0•5•1•Updated Jan 16, 2025Jan 16, 2025

• aind-ophys-roicat-session-matching

  Public
  Jupyter Notebook

  •

  MIT License

  •0•0•3•0•Updated Jan 16, 2025Jan 16, 2025

• Aind.Behavior.DynamicForaging

  Public
  A repository for the Dynamic Foraging task.

  Python

  •0•0•0•0•Updated Jan 16, 2025Jan 16, 2025

• aind-data-asset-indexer

  Public
  aind-core-servicesaind-deploy-services

  Python

  •

  MIT License

  •0•0•9•0•Updated Jan 16, 2025Jan 16, 2025

• voxel

  Public
  General purpose microscope control repository

  Python

  •

  MIT License

  •4•4•13•0•Updated Jan 16, 2025Jan 16, 2025

• aind-fip-qc-raw

  Public
  a capsule to generate QC based on fip raw data asest

  Python

  •

  MIT License

  •0•0•2•0•Updated Jan 16, 2025Jan 16, 2025

• dynamicrouting-processing-template

  Public template
  Template for capsules that process one or all NWB files in an attached "datacube" asset

  Python

  •

  MIT License

  •2•0•0•0•Updated Jan 16, 2025Jan 16, 2025

• aind-ophys-extraction-suite2p

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

  Python

  •

  MIT License

  •0•0•2•0•Updated Jan 16, 2025Jan 16, 2025

• ROICaT

  Public
  Region Of Interest Classification and Tracking

  Python

  •

  GNU General Public License v3.0

  •7•0•0•0•Updated Jan 16, 2025Jan 16, 2025

• aind-watchdog-service

  Public
  Data staging service that prepares acquistion data for cloud upload to Amazon S3 and Code Ocean processing.

  Python

  •

  MIT License

  •1•2•18•1•Updated Jan 16, 2025Jan 16, 2025

• foraging-behavior-browser

  Public
  Foraging behavior browser (streamlit)

  Python

  •

  MIT License

  •2•2•13•0•Updated Jan 16, 2025Jan 16, 2025