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    413 repositories

    • MicronsFunctionalConnectomics

      Public
      Code for "Functional connectomics spanning multiple areas of mouse visual cortex" by MICrONs Consortium et al.
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •1•0•0•0•Updated Feb 23, 2025Feb 23, 2025

    • bmtk

      Public
      Brain Modeling Toolkit
      pythonsimulationmodelingneuroscienceneural-networksneuroinformaticsneuron
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •90•282•59•9•Updated Feb 22, 2025Feb 22, 2025

    • abc_atlas_access

      Public
      Documentation and examples demonstrating how to access data from the Allen Brain Cell Atlas
      Jupyter Notebook
      •
      Other
      •23•59•13•6•Updated Feb 21, 2025Feb 21, 2025

    • scrattch.taxonomy

      Public
      Allen Institute Taxonomy building R package
      HTML
      •1•1•10•0•Updated Feb 21, 2025Feb 21, 2025

    • MIES

      Public
      Multichannel Igor Electrophysiology Suite
      electrophysiologyigor-prosupported
      IGOR Pro
      •
      Other
      •9•25•287•7•Updated Feb 21, 2025Feb 21, 2025

    • biofile-finder

      Public
      An open-use web application created for easy access, collaboration, and sharing of datasets through rich metadata search, filter, sort, and direct viewing in common industry applications or in our web-based 3D Volume Viewer.
      TypeScript
      •
      BSD 3-Clause "New" or "Revised" License
      •2•4•66•4•Updated Feb 21, 2025Feb 21, 2025

    • openscope_databook

      Public
      OpenScope databook: a collaborative, versioned, data-centric collection of foundational analyses for reproducible systems neuroscience 🐁🧠🔬🖥️📈
      visualizationpythonreproducible-researchdata-visualizationdata-analysisnwbdandi-archive
      Python
      •
      Other
      •21•63•13•4•Updated Feb 21, 2025Feb 21, 2025

    • sciduck

      Public
      Jupyter Notebook
      •4•1•5•0•Updated Feb 21, 2025Feb 21, 2025

    • neuroglancer

      Public
      WebGL-based viewer for volumetric data
      TypeScript
      •
      Apache License 2.0
      •310•0•0•0•Updated Feb 21, 2025Feb 21, 2025

    • TEM_config

      Public
      0•0•1•0•Updated Feb 21, 2025Feb 21, 2025

    • axonal_connectomics

      Public
      Repository for tools developed for axonal connectomics
      Jupyter Notebook
      •
      Other
      •1•2•3•0•Updated Feb 20, 2025Feb 20, 2025

    • npc_sessions_cache

      Public
      Scripts, notebooks and plots that operate on NWB or NWB-like objects from `npc_sessions` in the cloud.
      Jupyter Notebook
      •0•0•0•0•Updated Feb 20, 2025Feb 20, 2025

    • compute_motion_energy

      Public
      Step 2 of Behavior Video QC pipeline. Loads video Barr files and computes motion energy in 3d and
      Jupyter Notebook
      •
      Other
      •0•0•0•0•Updated Feb 20, 2025Feb 20, 2025

    • motion_energy_PCA

      Public
      Jupyter Notebook
      •
      Other
      •0•1•0•0•Updated Feb 20, 2025Feb 20, 2025

    • load_behavior_video

      Public
      First step in behavior video QC pipeline. Loads attached videos, saves gray frames in zarr file, saves metadata.
      Jupyter Notebook
      •0•0•0•0•Updated Feb 19, 2025Feb 19, 2025

    • deep-neurographs

      Public
      A Python package that utilizes machine learning to correct split mistakes in a fragmented neuron segmentation.
      Python
      •
      MIT License
      •0•3•0•0•Updated Feb 19, 2025Feb 19, 2025

    • pigeon

      Public
      A STOMP client with message definitions via Pydantic
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•0•1•0•Updated Feb 19, 2025Feb 19, 2025

    • AllenInstituteTaxonomy

      Public
      0•1•4•0•Updated Feb 19, 2025Feb 19, 2025

    • npc_sync

      Public
      Repackaging of AllenSDK.SyncDataset with extra functionality, compatible with data in the cloud.
      Python
      •
      MIT License
      •0•0•0•0•Updated Feb 19, 2025Feb 19, 2025

    • cell_type_mapper

      Public
      Repository for storing prototype functionality implementations for the BKP
      Python
      •
      Other
      •5•23•5•2•Updated Feb 18, 2025Feb 18, 2025

    • ZeroMQ-XOP

      Public
      The ZeroMQ XOP enables Igor Pro to interface over the network using a ZeroMQ messaging layer and JSON as message format
      C
      •
      BSD 3-Clause "New" or "Revised" License
      •8•9•9•0•Updated Feb 18, 2025Feb 18, 2025

    • dynamic_routing_analysis

      Public
      Tools for accessing, processing and presenting data from Dynamic Routing experiments.
      Jupyter Notebook
      •0•1•0•0•Updated Feb 18, 2025Feb 18, 2025

    • jem

      Public
      Repository containing JEM (JSON Electrophysiology Metadata), a web-form for logging metadata during slice electrophysiology experiments.
      HTML
      •
      Other
      •3•3•0•0•Updated Feb 14, 2025Feb 14, 2025

    • cplAE_MET

      Public
      Coupled autoencoder extension for MET analysis.
      Jupyter Notebook
      •0•1•0•0•Updated Feb 14, 2025Feb 14, 2025

    • DemoMkdocsOpenAPI

      Public
      Repository to be nested in DemoDocumentation
      0•0•0•0•Updated Feb 12, 2025Feb 12, 2025

    • vis

      Public
      Typescript packages for building big-data visualization tools & components, with examples for a variety of common data types & formats
      TypeScript
      •
      BSD 3-Clause "New" or "Revised" License
      •0•5•0•8•Updated Feb 12, 2025Feb 12, 2025

    • aibs-informatics-cdk-lib

      Public
      Library for AWS CDK Constructs related to AIBS Informatics Services
      aibs-informatics
      Python
      •
      Other
      •0•1•0•1•Updated Feb 12, 2025Feb 12, 2025

    • aibs-informatics-aws-lambda

      Public
      AWS Lambda library for AIBS Informatics lambda functions
      aibs-informatics
      Python
      •
      Other
      •0•1•0•0•Updated Feb 12, 2025Feb 12, 2025

    • TEM_comms

      Public
      Pigeon messages for the next generation TEM imaging system
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •2•1•1•0•Updated Feb 11, 2025Feb 11, 2025

    • transcriptomic_clustering

      Public
      improved clustering pipeline for transcriptomic data
      Python
      •
      Other
      •2•4•17•5•Updated Feb 8, 2025Feb 8, 2025