Loren Frank Lab at UCSF's repositories
track_linearization
Linearize 2D position to 1D using an HMM
position_tools
Tools for calculating smoothed 2D position, speed, head direction
rec_to_binaries
A python package that converts SpikeGadgets rec files in the Frank lab directory format to more useable binaries with the same directory format.
rec_to_nwb
Data Migration REC -> NWB 2.0 Service
trodes_to_nwb
Converts data from SpikeGadgets to the NWB Data Format
franklabnwb
Example notebook and related code to create NWB files from trodes .rec and associated files assuming franklab compatible naming system
Gillespie_Neuron_2021
analysis code for Gillespie et al, Neuron 2021
Joshi_et_al_2023
Analysis code for Joshi et al 2023 Dynamic synchronization between hippocampal representations and stepping
spyglass-paper
Code supporting Lee, Denovellis et al. (2024)
Gillespie_eLife_2024
Analysis code for Gillespie et al, eLife 2024, "Neurofeedback training can modulate task-relevant memory replay rate in rats"
ml_ms4alg
MountainSort v4
rec_to_nwb_yaml_creator
Create YAML files for rec-to-NWB Conversion
sorting-curations
holds text files with manual curation tags for spike sorting with mountainsort4
spyglass-demo
One-click demo spyglass. Try it out here: https://spyglass.hhmi.2i2c.cloud/
Discussions
Repository for Frank lab related discussions
dorsal_intermediate_analysis
Rhino's analysis of multi-site dorsal and intermediate hippocampal recordings
element-deeplabcut
DataJoint Element for behavioral analysis with DeepLabCut
hhmi-spyglass-image
Image environment to showcase HHMI/FrankLorenLab/Spyglass
jguides_2024
Jen's analysis of PFC and HPc recordings in rats
mountainsort4
MountainSort4 spike sorting algorithm
sortingview_old
Web app for viewing results of ephys spike sorting
spikeinterface
A Python-based module for creating flexible and robust spike sorting pipelines.