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@LorenFrankLab Loren Frank Lab at UCSF

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    37 repositories

    • spyglass

      Public
      Neuroscience data analysis framework for reproducible research built by Loren Frank Lab at UCSF
      neuroscienceelectrophysiologynwbdatajointspikeinterfacekacherysortingviewpython
      Jupyter Notebook
      •
      MIT License
      •42•94•91•4•Updated Nov 14, 2024Nov 14, 2024

    • realtime_decoder

      Public
      Python
      •0•1•0•0•Updated Nov 13, 2024Nov 13, 2024

    • spyglass-demo

      Public
      One-click demo spyglass. Try it out here: https://spyglass.hhmi.2i2c.cloud/
      Jupyter Notebook
      •2•0•0•0•Updated Nov 10, 2024Nov 10, 2024

    • .github

      Public
      0•0•0•0•Updated Nov 8, 2024Nov 8, 2024

    • spyglass-export-docker

      Public
      A template for generating Dockerized implementations of Spyglass exports
      Makefile
      •
      MIT License
      •2•0•0•0•Updated Oct 24, 2024Oct 24, 2024

    • trodes_to_nwb

      Public
      Converts data from SpikeGadgets to the NWB Data Format
      Jupyter Notebook
      •
      MIT License
      •3•2•8•0•Updated Oct 23, 2024Oct 23, 2024

    • track_linearization

      Public
      Linearize 2D position to 1D using an HMM
      Python
      •
      MIT License
      •3•6•0•0•Updated Oct 23, 2024Oct 23, 2024

    • non_local_detector

      Public
      Jupyter Notebook
      •
      MIT License
      •1•1•1•0•Updated Oct 23, 2024Oct 23, 2024

    • ndx-franklab-novela

      Public
      Python
      •
      Other
      •1•0•0•0•Updated Oct 2, 2024Oct 2, 2024

    • fsgui

      Public
      Feedback and stimulation gui for real time experiment control
      Python
      •
      MIT License
      •1•2•0•0•Updated Sep 16, 2024Sep 16, 2024

    • sorting-curations

      Public
      holds text files with manual curation tags for spike sorting with mountainsort4
      3•0•0•0•Updated Jul 31, 2024Jul 31, 2024

    • rec_to_binaries

      Public
      A python package that converts SpikeGadgets rec files in the Frank lab directory format to more useable binaries with the same directory format.
      Jupyter Notebook
      •
      MIT License
      •6•2•1•2•Updated Jul 8, 2024Jul 8, 2024

    • rec_to_nwb

      Public
      Data Migration REC -> NWB 2.0 Service
      Python
      •
      Other
      •9•2•3•0•Updated Jun 5, 2024Jun 5, 2024

    • dorsal_intermediate_analysis

      Public
      Rhino's analysis of multi-site dorsal and intermediate hippocampal recordings
      Python
      •
      MIT License
      •0•0•0•0•Updated May 24, 2024May 24, 2024

    • hhmi-spyglass-image

      Public
      Image environment to showcase HHMI/FrankLorenLab/Spyglass
      Shell
      •
      BSD 3-Clause "New" or "Revised" License
      •5•0•0•0•Updated Apr 30, 2024Apr 30, 2024

    • spykshrk_realtime

      Public
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •7•4•0•0•Updated Apr 25, 2024Apr 25, 2024

    • spyglass-paper

      Public
      Code supporting Lee, Denovellis et al. (2024)
      Jupyter Notebook
      •0•1•0•0•Updated Mar 8, 2024Mar 8, 2024

    • position_tools

      Public
      Tools for calculating smoothed 2D position, speed, head direction
      Python
      •
      MIT License
      •2•2•0•0•Updated Feb 14, 2024Feb 14, 2024

    • jguides_2024

      Public
      Jen's analysis of PFC and HPc recordings in rats
      Python
      •1•0•0•0•Updated Feb 14, 2024Feb 14, 2024

    • Gillespie_eLife_2024

      Public
      Analysis code for Gillespie et al, eLife 2024, "Neurofeedback training can modulate task-relevant memory replay rate in rats"
      MATLAB
      •
      MIT License
      •0•0•0•0•Updated Jan 28, 2024Jan 28, 2024

    • franklabnwb

      Public
      Example notebook and related code to create NWB files from trodes .rec and associated files assuming franklab compatible naming system
      Jupyter Notebook
      •5•1•0•0•Updated Jan 26, 2024Jan 26, 2024

    • rec_to_nwb_yaml_creator

      Public
      Create YAML files for rec-to-NWB Conversion
      yamlneurosciencenwbucsfrecspyglassnwb-conversionfrank-lab
      JavaScript
      •
      MIT License
      •1•0•4•0•Updated Jan 20, 2024Jan 20, 2024

    • Discussions

      Public
      Repository for Frank lab related discussions
      0•0•0•0•Updated Jul 18, 2023Jul 18, 2023

    • mountainsort4

      Public
      MountainSort4 spike sorting algorithm
      Python
      •4•0•0•0•Updated Apr 10, 2023Apr 10, 2023

    • Joshi_et_al_2023

      Public
      Analysis code for Joshi et al 2023 Dynamic synchronization between hippocampal representations and stepping
      MATLAB
      •
      MIT License
      •0•1•0•0•Updated Mar 27, 2023Mar 27, 2023

    • spyglass-dlc

      Public
      Jupyter Notebook
      •0•0•4•1•Updated Oct 27, 2022Oct 27, 2022

    • Gillespie_Neuron_2021

      Public
      analysis code for Gillespie et al, Neuron 2021
      MATLAB
      •
      MIT License
      •0•1•0•0•Updated Oct 8, 2022Oct 8, 2022

    • element-deeplabcut

      Public
      DataJoint Element for behavioral analysis with DeepLabCut
      Python
      •
      MIT License
      •37•0•0•0•Updated Aug 15, 2022Aug 15, 2022

    • spikeinterface

      Public
      A Python-based module for creating flexible and robust spike sorting pipelines.
      Python
      •
      MIT License
      •187•0•0•0•Updated Aug 11, 2022Aug 11, 2022

    • sortingview_old

      Public
      Web app for viewing results of ephys spike sorting
      Python
      •8•0•0•0•Updated Jan 10, 2022Jan 10, 2022