Metadata-Version: 1.1
Name: phy
Version: 1.0.2
Summary: Spike sorting and ephys data analysis for 1000 channels and beyond
Home-page: https://phy.cortexlab.net
Author: Kwik Team
Author-email: cyrille.rossant at gmail.com
License: BSD
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**](http://klusta.readthedocs.org/en/latest/), 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.
        
        
        ## Installation
        
        **Note**: the installation instructions will be simplified soon.
        
        1. Make sure that you have [**miniconda**](http://conda.pydata.org/miniconda.html) installed. You can choose the Python 3.5 64-bit version for your operating system (Linux, Windows, or OS X).
        2. **Download the [environment file](https://raw.githubusercontent.com/kwikteam/phy/master/installer/environment.yml).**
        3. **Open a terminal** (on Windows, `cmd`, not Powershell) in the directory where you saved the file and type:
        
            ```bash
            conda env create -n phy
            source activate phy  # omit the `source` on Windows
            pip install phy phycontrib
            ```
        4. **Done**! Now, to use phy, you have to first type `source activate phy` in a terminal (omit the `source` on Windows), and then call `phy`.
        
        
        ### Updating the software
        
        To get the latest version of the software, open a terminal and type:
        
        ```
        source activate phy  # omit the `source` on Windows
        pip install phy phycontrib --upgrade
        ```
        
        
        ## 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.
        
Keywords: phy,data analysis,electrophysiology,neuroscience
Platform: UNKNOWN
Classifier: Development Status :: 4 - Beta
Classifier: Intended Audience :: Developers
Classifier: License :: OSI Approved :: BSD License
Classifier: Natural Language :: English
Classifier: Framework :: IPython
Classifier: Programming Language :: Python :: 2
Classifier: Programming Language :: Python :: 2.7
Classifier: Programming Language :: Python :: 3
Classifier: Programming Language :: Python :: 3.5
