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    397 repositories

    • MIES

      Public
      Multichannel Igor Electrophysiology Suite
      electrophysiologyigor-prosupported
      IGOR Pro
      •
      Other
      •7•23•288•11•Updated Nov 5, 2024Nov 5, 2024

    • dynamic_routing_analysis

      Public
      Tools for accessing, processing and presenting data from Dynamic Routing experiments.
      Jupyter Notebook
      •0•1•0•0•Updated Nov 5, 2024Nov 5, 2024

    • merquaco

      Public
      Jupyter Notebook
      •
      Other
      •2•1•0•0•Updated Nov 5, 2024Nov 5, 2024

    • TEM_config

      Public
      0•0•1•0•Updated Nov 5, 2024Nov 5, 2024

    • cell_type_mapper

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

    • motion_energy_PCA

      Public
      Shell
      •
      Other
      •0•0•0•0•Updated Nov 4, 2024Nov 4, 2024

    • video_descriptive_statistics

      Public
      Shell
      •
      Other
      •0•0•0•0•Updated Nov 4, 2024Nov 4, 2024

    • np_notebooks

      Public
      Jupyter Notebook
      •3•0•0•0•Updated Nov 4, 2024Nov 4, 2024

    • np_codeocean

      Public
      Tools for uploading and interacting with Mindscope Neuropixels experiments on Code Ocean
      Python
      •2•0•1•0•Updated Nov 4, 2024Nov 4, 2024

    • 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 Nov 4, 2024Nov 4, 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•40•2•Updated Nov 4, 2024Nov 4, 2024

    • bmtk

      Public
      Brain Modeling Toolkit
      pythonsimulationmodelingneuroscienceneural-networksneuroinformaticsneuron
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •88•272•58•8•Updated Nov 4, 2024Nov 4, 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 4, 2024Nov 4, 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 Nov 4, 2024Nov 4, 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•1•Updated Nov 4, 2024Nov 4, 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 3, 2024Nov 3, 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 2, 2024Nov 2, 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•53•0•Updated Nov 2, 2024Nov 2, 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 2, 2024Nov 2, 2024

    • sciduck

      Public
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •2•1•11•0•Updated Nov 2, 2024Nov 2, 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 2, 2024Nov 2, 2024

    • abc_atlas_access

      Public
      Documentation and examples demonstrating how to access data from the Allen Brain Cell Atlas
      Jupyter Notebook
      •
      Other
      •21•50•12•4•Updated Oct 31, 2024Oct 31, 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 31, 2024Oct 31, 2024

    • scrattch.taxonomy

      Public
      Allen Institute Taxonomy building R package
      HTML
      •1•1•7•1•Updated Oct 31, 2024Oct 31, 2024

    • axonal_connectomics

      Public
      Repository for tools developed for axonal connectomics
      Jupyter Notebook
      •
      Other
      •1•2•3•0•Updated Oct 30, 2024Oct 30, 2024

    • PeakRankR

      Public
      Package to rank enhancer peaks for cloning
      R
      •
      Other
      •0•0•0•0•Updated Oct 30, 2024Oct 30, 2024

    • npc_io

      Public
      File IO tools for MindScope Neuropixels projects in the cloud.
      Python
      •
      MIT License
      •0•0•0•0•Updated Oct 29, 2024Oct 29, 2024

    • TEM_comms

      Public
      Pigeon messages for the next generation TEM imaging system
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •1•0•1•0•Updated Oct 29, 2024Oct 29, 2024

    • distributed-vae

      Public
      Distributed training of multi-arm variational autoencoding networks
      Jupyter Notebook
      •
      MIT License
      •0•1•0•0•Updated Oct 28, 2024Oct 28, 2024

    • ipfx

      Public
      computes intrinsic cell features from intracellular electrophysiology data
      Python
      •
      Other
      •36•27•55•5•Updated Oct 28, 2024Oct 28, 2024