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    392 repositories

    • abc_atlas_access

      Public
      Documentation and examples demonstrating how to access data from the Allen Brain Cell Atlas
      Jupyter Notebook
      •
      Other
      •21•50•14•5•Updated Oct 25, 2024Oct 25, 2024

    • microns_tutorial

      Public
      MICrONS databook and analysis tutorials
      Jupyter Notebook
      •2•1•0•0•Updated Oct 25, 2024Oct 25, 2024

    • MIES

      Public
      Multichannel Igor Electrophysiology Suite
      electrophysiologyigor-prosupported
      IGOR Pro
      •
      Other
      •7•23•287•9•Updated Oct 25, 2024Oct 25, 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•6•1•Updated Oct 25, 2024Oct 25, 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 Oct 25, 2024Oct 25, 2024

    • 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•46•5•Updated Oct 24, 2024Oct 24, 2024

    • patchseq_autotrace

      Public
      Execution of patchseq slice autotrace pipeline
      Python
      •0•0•0•0•Updated Oct 24, 2024Oct 24, 2024

    • dynamic_routing_analysis

      Public
      Tools for accessing, processing and presenting data from Dynamic Routing experiments.
      Jupyter Notebook
      •0•1•0•0•Updated Oct 24, 2024Oct 24, 2024

    • Extract_Somatic_Features

      Public
      A pipeline to extract soma and nucleus features from the segmentation of precomputed EM datasets.
      Jupyter Notebook
      •
      MIT License
      •0•0•0•0•Updated Oct 24, 2024Oct 24, 2024

    • cell_type_mapper

      Public
      Repository for storing prototype functionality implementations for the BKP
      Python
      •
      Other
      •4•18•3•2•Updated Oct 24, 2024Oct 24, 2024

    • ipfx

      Public
      computes intrinsic cell features from intracellular electrophysiology data
      Python
      •
      Other
      •36•26•57•6•Updated Oct 23, 2024Oct 23, 2024

    • brain_observatory_utilities

      Public
      A repository for analysis tools for data available from the AllenSDK
      Jupyter Notebook
      •
      Other
      •2•4•11•2•Updated Oct 23, 2024Oct 23, 2024

    • ephys-analysis-tools

      Public
      Code base generating formatted data tables that streamlines data analysis process for ephys production metadata.
      Python
      •0•0•0•0•Updated Oct 23, 2024Oct 23, 2024

    • npc_samstim

      Public
      Tools for processing stim data from Sam's DynamicRoutingTask, compatible with data in the cloud.
      Python
      •
      MIT License
      •0•0•0•0•Updated Oct 23, 2024Oct 23, 2024

    • 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•51•1•Updated Oct 23, 2024Oct 23, 2024

    • 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 Oct 22, 2024Oct 22, 2024

    • npc_sync

      Public
      Repackaging of AllenSDK.SyncDataset with extra functionality, compatible with data in the cloud.
      Python
      •
      MIT License
      •0•0•0•0•Updated Oct 21, 2024Oct 21, 2024

    • TEM_setup

      Public
      Setup instructions and script for the TEM computers.
      Shell
      •0•0•0•0•Updated Oct 21, 2024Oct 21, 2024

    • pigeon

      Public
      A STOMP client with message definitions via Pydantic
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•0•1•0•Updated Oct 20, 2024Oct 20, 2024

    • axonal_connectomics

      Public
      Repository for tools developed for axonal connectomics
      Jupyter Notebook
      •
      Other
      •1•2•3•0•Updated Oct 19, 2024Oct 19, 2024

    • ACE

      Public
      R Shiny app for comparison of annotations (e.g., cell type assignments)
      R
      •
      Other
      •1•1•7•0•Updated Oct 19, 2024Oct 19, 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 Oct 19, 2024Oct 19, 2024

    • pss_extraction_pipeline

      Public
      Tools for extracting PSS for analysis
      Python
      •
      Other
      •0•0•0•0•Updated Oct 18, 2024Oct 18, 2024

    • distributed-vae

      Public
      Distributed training of multi-arm variational autoencoding networks
      Jupyter Notebook
      •
      MIT License
      •0•1•0•0•Updated Oct 17, 2024Oct 17, 2024

    • SEA-AD_2024

      Public
      Jupyter Notebook
      •
      Other
      •1•4•0•0•Updated Oct 17, 2024Oct 17, 2024

    • npc_io

      Public
      File IO tools for MindScope Neuropixels projects in the cloud.
      Python
      •
      MIT License
      •0•0•0•0•Updated Oct 17, 2024Oct 17, 2024

    • TEM_config

      Public
      0•0•1•0•Updated Oct 16, 2024Oct 16, 2024

    • anndata_dissector

      Public
      Utilities for slicing and dicing h5ad files without overwhelming your system's memory
      Python
      •0•0•0•0•Updated Oct 16, 2024Oct 16, 2024

    • np_codeocean

      Public
      Tools for uploading and interacting with Mindscope Neuropixels experiments on Code Ocean
      Python
      •2•0•1•0•Updated Oct 16, 2024Oct 16, 2024

    • np_notebooks

      Public
      Jupyter Notebook
      •3•0•0•0•Updated Oct 15, 2024Oct 15, 2024