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    397 repositories

    • 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•3•50•6•Updated Nov 19, 2024Nov 19, 2024

    • dynamic_routing_analysis

      Public
      Tools for accessing, processing and presenting data from Dynamic Routing experiments.
      Jupyter Notebook
      •0•1•0•0•Updated Nov 18, 2024Nov 18, 2024

    • MIES

      Public
      Multichannel Igor Electrophysiology Suite
      electrophysiologyigor-prosupported
      IGOR Pro
      •
      Other
      •7•23•288•11•Updated Nov 18, 2024Nov 18, 2024

    • cplAE_MET

      Public
      Coupled autoencoder extension for MET analysis.
      Jupyter Notebook
      •0•1•0•0•Updated Nov 18, 2024Nov 18, 2024

    • 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•10•1•Updated Nov 18, 2024Nov 18, 2024

    • 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 Nov 18, 2024Nov 18, 2024

    • sciduck

      Public
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •2•1•4•0•Updated Nov 18, 2024Nov 18, 2024

    • deep-neurographs

      Public
      Deep-Neurographs is a Python module that utilizes machine learning to detect and correct false splits in a predicted neuron segmentation.
      Python
      •
      MIT License
      •0•3•0•0•Updated Nov 18, 2024Nov 18, 2024

    • scrattch.mapping

      Public
      Genearlized mapping scripts for RNA-seq and Patch-seq data
      R
      •2•10•8•0•Updated Nov 18, 2024Nov 18, 2024

    • scrattch.patchseq

      Public
      R
      •1•0•0•0•Updated Nov 18, 2024Nov 18, 2024

    • scrattch.taxonomy

      Public
      Allen Institute Taxonomy building R package
      HTML
      •1•1•8•0•Updated Nov 18, 2024Nov 18, 2024

    • 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
      •19•63•11•2•Updated Nov 18, 2024Nov 18, 2024

    • visual_behavior_analysis

      Public
      Python package for analyzing behavioral data for Brain Observatory: Visual Behavior
      pythonbehaviorneurosciencepsychologypsychophysics
      Jupyter Notebook
      •
      Other
      •6•22•65•6•Updated Nov 18, 2024Nov 18, 2024

    • scrattch

      Public
      Single cell RNA-seq analysis for transcriptomic type characterization
      rumbrellatranscriptomicsscrattch
      R
      •
      Other
      •3•30•0•0•Updated Nov 17, 2024Nov 17, 2024

    • npc_lims

      Public
      Tools to fetch and update paths, metadata and state for Mindscope Neuropixels sessions, in the cloud.
      Python
      •
      MIT License
      •0•0•5•0•Updated Nov 16, 2024Nov 16, 2024

    • abc_atlas_access

      Public
      Documentation and examples demonstrating how to access data from the Allen Brain Cell Atlas
      Jupyter Notebook
      •
      Other
      •21•51•13•5•Updated Nov 15, 2024Nov 15, 2024

    • cell_type_mapper

      Public
      Repository for storing prototype functionality implementations for the BKP
      Python
      •
      Other
      •4•18•4•2•Updated Nov 15, 2024Nov 15, 2024

    • bmtk

      Public
      Brain Modeling Toolkit
      pythonsimulationmodelingneuroscienceneural-networksneuroinformaticsneuron
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •88•274•58•8•Updated Nov 15, 2024Nov 15, 2024

    • neuroanalysis

      Public
      Modular analysis tools for neurophysiology data
      Python
      •
      MIT License
      •10•7•1•2•Updated Nov 15, 2024Nov 15, 2024

    • txtox

      Public
      Experiments to relate gene expression and anatomical location
      Jupyter Notebook
      •0•0•0•0•Updated Nov 14, 2024Nov 14, 2024

    • axonal_connectomics

      Public
      Repository for tools developed for axonal connectomics
      Jupyter Notebook
      •
      Other
      •1•2•3•0•Updated Nov 13, 2024Nov 13, 2024

    • asap-modules

      Public
      Shared repo for EM connectomics and Array Tomography render based image processing modules
      Python
      •
      BSD 2-Clause "Simplified" License
      •4•14•12•2•Updated Nov 12, 2024Nov 12, 2024

    • EM_MC_paper_figures

      Public
      Notebooks for analyzing and generating figures for EM MC paper
      Jupyter Notebook
      •
      Other
      •0•1•0•0•Updated Nov 12, 2024Nov 12, 2024

    • np_notebooks

      Public
      Jupyter Notebook
      •3•0•0•0•Updated Nov 12, 2024Nov 12, 2024

    • mtrain_regimens

      Public
      Repository to track training stages and regimens for visual behavior
      Python
      •
      Other
      •4•2•14•0•Updated Nov 12, 2024Nov 12, 2024

    • scrattch.bigcat

      Public
      iterative clustering pipeline of big single cell datasets.
      R
      •10•26•4•2•Updated Nov 11, 2024Nov 11, 2024

    • merquaco

      Public
      Jupyter Notebook
      •
      Other
      •2•2•0•0•Updated Nov 11, 2024Nov 11, 2024

    • compute_motion_energy

      Public
      Step 2 of Behavior Video QC pipeline. Loads video Barr files and computes motion energy in 3d and
      Shell
      •
      Other
      •0•0•0•0•Updated Nov 11, 2024Nov 11, 2024

    • pigeon

      Public
      A STOMP client with message definitions via Pydantic
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•0•1•0•Updated Nov 9, 2024Nov 9, 2024

    • npc_mvr

      Public
      Tools for reading raw video data from MindScope Neuropixels experiments, compatible with data in the cloud.
      Python
      •
      MIT License
      •0•0•0•0•Updated Nov 8, 2024Nov 8, 2024