YASS: Yet Another Spike Sorter
YASS is a state-of-the-art method for spike sorting.
Note: We are currently working on improving YASS to be usable in different types of neural data. The neural network detector currently only works in reduced use cases. We will add more models soon.
Lee, J. et al. (2017). YASS: Yet another spike sorter. Neural Information Processing Systems. Available in biorxiv: https://www.biorxiv.org/content/early/2017/06/19/151928
Installing the last stable version:
pip install git+https://github.com/paninski-lab/yass
Quick example of YASS using a sample of the neuropixel data from Nick Steinmetz:
# clone the repo and move to the main folder git clone https://github.com/paninski-lab/yass cd yass # install package (this is the same as running # pip install git+https://github.com/paninski-lab/yass) pip install . # move to the examples folder and run yass in the sample data cd examples yass config_sample.yaml # see the spike train cat data/spike_train.csv
You can also use YASS in Python scripts. See the documentation for details.
Documentation hosted at https://yass.readthedocs.io
You need to install graphviz to build the graphs included in the documentation. On macOS:
brew install graphviz
cd doc make [format]
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