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    313 repositories

    • aind-software-docs

      Public
      Centralized documentation repository for Scientific Computing, publishes to RTD
      Python
      •
      MIT License
      •0•0•0•0•Updated Jan 12, 2025Jan 12, 2025

    • aind-metadata-mapper

      Public
      Repository to help gather and map metadata from different sources
      aind-core-services
      Python
      •
      MIT License
      •2•0•25•1•Updated Jan 12, 2025Jan 12, 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•17•1•Updated Jan 11, 2025Jan 11, 2025

    • TigerASI

      Public
      a lightweight python interface for ASI brand Tiger Controllers
      driverspim
      Python
      •
      MIT License
      •2•5•12•1•Updated Jan 11, 2025Jan 11, 2025

    • Aind.Behavior.ExperimentLauncher

      Public
      Source for for a minimal framework that can be used to build experimental interfaces
      aind-behavior
      Python
      •
      MIT License
      •0•0•11•2•Updated Jan 11, 2025Jan 11, 2025

    • foraging-behavior-browser

      Public
      Foraging behavior browser (streamlit)
      Python
      •
      MIT License
      •2•2•14•0•Updated Jan 11, 2025Jan 11, 2025

    • dynamic-foraging-task

      Public
      Bonsai/Harp workflow for Dynamic Foraging with Python GUI for visualization and control
      Python
      •
      MIT License
      •4•5•118•8•Updated Jan 11, 2025Jan 11, 2025

    • aind-multiplane-ophys-pipeline

      Public
      Nextflow
      •
      MIT License
      •0•0•2•0•Updated Jan 11, 2025Jan 11, 2025

    • aind-qc-portal

      Public
      Quality control portal
      Python
      •
      MIT License
      •0•0•13•0•Updated Jan 10, 2025Jan 10, 2025

    • aind-data-schema

      Public
      A library that defines AIND data schema and validates JSON.
      aind-core-services
      Python
      •
      MIT License
      •17•23•51•9•Updated Jan 10, 2025Jan 10, 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 10, 2025Jan 10, 2025

    • Aind.Behavior.VrForaging

      Public
      Task implemention of VR Foraging experiment
      aind-behavior
      C#
      •
      MIT License
      •0•2•18•1•Updated Jan 10, 2025Jan 10, 2025

    • ibl-smartspim-conversion-launcher

      Public
      Python
      •0•0•0•0•Updated Jan 10, 2025Jan 10, 2025

    • aind-co-pipeline-monitor-capsule-all-users

      Public
      Python
      •
      MIT License
      •0•0•0•0•Updated Jan 10, 2025Jan 10, 2025

    • ephys-sorting-manual-curation

      Public
      Repository for collecting manual curation data for spike-sorting
      Python
      •0•1•0•0•Updated Jan 10, 2025Jan 10, 2025

    • voxel

      Public
      General purpose microscope control repository
      Python
      •
      MIT License
      •4•4•13•0•Updated Jan 10, 2025Jan 10, 2025

    • aind-ephys-processing-qc

      Public
      CodeOcean Capsule for ephys quality control
      Python
      •
      MIT License
      •0•0•0•0•Updated Jan 10, 2025Jan 10, 2025

    • aind-units-nwb

      Public
      Code Ocean capsule to export ephys units data to NWB
      Python
      •
      MIT License
      •0•0•2•0•Updated Jan 10, 2025Jan 10, 2025

    • aind-subject-nwb

      Public
      Python
      •
      MIT License
      •0•0•1•1•Updated Jan 10, 2025Jan 10, 2025

    • aind-ephys-results-collector

      Public
      Code Ocean capsule for result collection
      Python
      •
      MIT License
      •0•0•0•0•Updated Jan 10, 2025Jan 10, 2025

    • aind-ephys-curation

      Public
      Code Ocean capsule for ephys curation
      Python
      •
      MIT License
      •0•1•0•0•Updated Jan 10, 2025Jan 10, 2025

    • aind-ephys-postprocessing

      Public
      CodeOcean capsule for ephys post-processing
      Python
      •
      MIT License
      •0•0•1•0•Updated Jan 10, 2025Jan 10, 2025

    • aind-ephys-spikesort-kilosort4

      Public
      CodeOcean capsule for ephys spike sorting with Kilosort4
      Python
      •
      MIT License
      •0•2•1•0•Updated Jan 10, 2025Jan 10, 2025

    • aind-ephys-preprocessing

      Public
      CodeOcean capsule for ephys preprocessing
      Python
      •
      MIT License
      •0•0•0•0•Updated Jan 10, 2025Jan 10, 2025

    • aind-ephys-job-dispatch

      Public
      Capsule to dispatch ephys jobs in CO pipeline
      Python
      •
      MIT License
      •0•0•0•0•Updated Jan 10, 2025Jan 10, 2025

    • aind-ephys-unit-classifier

      Public
      Classify spike sorting units
      Python
      •
      MIT License
      •0•1•0•0•Updated Jan 10, 2025Jan 10, 2025

    • mfishtoolspy

      Public
      Tools to analysis mFISH data, including gene panel selection from reference dataset
      Jupyter Notebook
      •
      BSD 2-Clause "Simplified" License
      •0•0•1•0•Updated Jan 10, 2025Jan 10, 2025

    • aind-data-schema-models

      Public
      Data models used in aind-data-schema
      Python
      •
      MIT License
      •2•0•5•2•Updated Jan 10, 2025Jan 10, 2025

    • exaspim-control

      Public
      Python
      •
      MIT License
      •1•1•3•0•Updated Jan 10, 2025Jan 10, 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•16•1•Updated Jan 10, 2025Jan 10, 2025