Spike sorting and ephys data analysis for 1000 channels and beyond
Project description
# phy project
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[phy](https://github.com/kwikteam/phy) is an open source neurophysiological data analysis package in Python. It provides features for sorting, analyzing, and visualizing extracellular recordings made with high-density multielectrode arrays containing hundreds to thousands of recording sites.
## Overview
phy contains the following subpackages:
phy.cluster.manual: an API for manual sorting, used to create graphical interfaces for neurophysiological data
phy.gui: a generic API for creating desktop applications with PyQt.
phy.plot: a generic API for creating high-performance plots with VisPy (using the graphics processor via OpenGL)
phy doesn’t provide any I/O code. It only provides Python routines to process and visualize data.
## phy-contrib
The [phy-contrib](https://github.com/kwikteam/phy-contrib) repo contains a set of plugins with integrated GUIs that work with dedicated automatic clustering software. Currently it provides:
KwikGUI: a manual sorting GUI that works with data processed with klusta, an automatic clustering package.
TemplateGUI: a manual sorting GUI that works with data processed with Spyking Circus and KiloSort (not released yet), which are template-matching-based spike sorting algorithms.
## Getting started
You will find installation instructions and a quick start guide in the [documentation](http://phy.readthedocs.org/en/latest/) (work in progress).
## Links
[Documentation](http://phy.readthedocs.org/en/latest/) (work in progress)
[Mailing list](https://groups.google.com/forum/#!forum/phy-users)
[Sample data repository](http://phy.cortexlab.net/data/) (work in progress)
## Credits
phy is developed by [Cyrille Rossant](http://cyrille.rossant.net), [Shabnam Kadir](https://iris.ucl.ac.uk/iris/browse/profile?upi=SKADI56), [Dan Goodman](http://thesamovar.net/), [Max Hunter](https://iris.ucl.ac.uk/iris/browse/profile?upi=MLDHU99), and [Kenneth Harris](https://iris.ucl.ac.uk/iris/browse/profile?upi=KDHAR02), in the [Cortexlab](https://www.ucl.ac.uk/cortexlab), University College London.
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