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    409 repositories

    • modular-networks-theory

      Public
      Python
      •
      Other
      •0•0•0•0•Updated Jan 11, 2025Jan 11, 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
      •1•4•55•1•Updated Jan 11, 2025Jan 11, 2025

    • cell_type_mapper

      Public
      Repository for storing prototype functionality implementations for the BKP
      Python
      •
      Other
      •4•19•5•2•Updated Jan 10, 2025Jan 10, 2025

    • licking_behavior_NP

      Public
      Analysis of mouse licking behavior during visually guided behavior
      Python
      •1•0•1•0•Updated Jan 10, 2025Jan 10, 2025

    • aibs-informatics-test-resources

      Public
      Python test utility package
      aibs-informatics
      Python
      •
      Other
      •0•1•0•1•Updated Jan 10, 2025Jan 10, 2025

    • MicronsFunctionalConnectomics

      Public
      Code for "Functional connectomics spanning multiple areas of mouse visual cortex" by MICrONs Consortium et al.
      BSD 3-Clause "New" or "Revised" License
      •0•0•0•0•Updated Jan 10, 2025Jan 10, 2025

    • MIES

      Public
      Multichannel Igor Electrophysiology Suite
      electrophysiologyigor-prosupported
      IGOR Pro
      •
      Other
      •9•25•292•9•Updated Jan 10, 2025Jan 10, 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 Jan 10, 2025Jan 10, 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•4•Updated Jan 10, 2025Jan 10, 2025

    • deep-neurographs

      Public
      Deep-Neurographs is a Python module that utilizes machine learning to detect and correct false splits in a predicted neuron segmentation.
      Jupyter Notebook
      •
      MIT License
      •0•3•0•0•Updated Jan 10, 2025Jan 10, 2025

    • npc_sessions

      Public
      Tools for accessing and packaging data from behavior and epyhys sessions from the Mindscope Neuropixels team, in the cloud.
      Python
      •1•1•53•0•Updated Jan 10, 2025Jan 10, 2025

    • np_notebooks

      Public
      Jupyter Notebook
      •3•0•0•0•Updated Jan 10, 2025Jan 10, 2025

    • np_workflows

      Public
      Jupyter Notebook
      •3•1•2•0•Updated Jan 10, 2025Jan 10, 2025

    • brain_observatory_analysis

      Public
      TODO
      Jupyter Notebook
      •
      Other
      •0•3•3•1•Updated Jan 9, 2025Jan 9, 2025

    • npc_shields

      Public
      Tools for Neuropixels probe insertion into SHIELD implants: providing suggested targets, recording actual insertions, storing notes.
      Python
      •0•0•0•0•Updated Jan 9, 2025Jan 9, 2025

    • ACE

      Public
      R Shiny app for comparison of annotations (e.g., cell type assignments)
      R
      •
      Other
      •1•1•6•0•Updated Jan 9, 2025Jan 9, 2025

    • scrattch.bigcat

      Public
      iterative clustering pipeline of big single cell datasets.
      R
      •10•27•4•0•Updated Jan 8, 2025Jan 8, 2025

    • scrattch.taxonomy

      Public
      Allen Institute Taxonomy building R package
      HTML
      •1•1•10•1•Updated Jan 8, 2025Jan 8, 2025

    • aibs-informatics-core

      Public
      Core library to be used as foundation across multiple projects
      aibs-informatics
      Python
      •
      Other
      •0•2•0•2•Updated Jan 8, 2025Jan 8, 2025

    • visual_behavior_analysis

      Public
      Python package for analyzing behavioral data for Brain Observatory: Visual Behavior
      pythonbehaviorneurosciencepsychologypsychophysics
      Jupyter Notebook
      •
      Other
      •6•23•65•6•Updated Jan 8, 2025Jan 8, 2025

    • txtox

      Public
      Experiments to relate gene expression and anatomical location
      Jupyter Notebook
      •0•0•0•0•Updated Jan 8, 2025Jan 8, 2025

    • cplAE_MET

      Public
      Coupled autoencoder extension for MET analysis.
      Jupyter Notebook
      •0•1•0•0•Updated Jan 8, 2025Jan 8, 2025

    • microns_tutorial

      Public
      MICrONS databook and analysis tutorials
      Jupyter Notebook
      •2•1•0•0•Updated Jan 7, 2025Jan 7, 2025

    • motion_energy_PCA

      Public
      Python
      •
      Other
      •0•0•0•0•Updated Jan 7, 2025Jan 7, 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 Jan 7, 2025Jan 7, 2025

    • acq4

      Public
      Data acquisition for patch clamp ephys / optogenetics / imaging experiments
      Python
      •
      MIT License
      •51•1•0•0•Updated Jan 7, 2025Jan 7, 2025

    • npc_lims

      Public
      Tools to fetch and update paths, metadata and state for Mindscope Neuropixels sessions, in the cloud.
      Python
      •
      MIT License
      •0•0•3•0•Updated Jan 7, 2025Jan 7, 2025

    • dynamic_routing_analysis

      Public
      Tools for accessing, processing and presenting data from Dynamic Routing experiments.
      Jupyter Notebook
      •0•1•0•0•Updated Jan 6, 2025Jan 6, 2025

    • EnhancerBenchmark

      Public
      Python
      •0•2•0•0•Updated Jan 3, 2025Jan 3, 2025

    • TEM_comms

      Public
      Pigeon messages for the next generation TEM imaging system
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •2•0•1•0•Updated Dec 25, 2024Dec 25, 2024