Python module for extracting recorded and spike sorted extracellular data from different file types and formats
Project description
SpikeExtractors
SpikeExtractors is a package of the SpikeInterface project designed to address issues of file format compatibility within spike sorting pipelines without creating yet another file format.
SpikeExtractors provides functionality to extract data from, convert between, and interface with many common file formats in extracellular recording. File types that can be utilized with SpikeExtractors include recorded dataset files, sorted dataset files, and probe files (.csv and .prb).
Getting Started
To get started with SpikeExtractors, you can install it with pip:
pip install spikeextractors
You can also get SpikeExtractors through the spikeinterface package:
pip install spikeinterface
You can also install SpikeExtractors locally by cloning the repo into your code base. If you install SpikeExtractors locally, you need to run the setup.py file.
git clone https://github.com/SpikeInterface/spikeextractors.git
cd spikeextractors
python setup.py install
Examples
For more information about how to use SpikeExtractors, please checkout these examples.
Documentation
All documentation for SpikeInterface can be found here: https://spikeinterface.readthedocs.io/en/latest/.
Authors
Cole Hurwitz - The Institute for Adaptive and Neural Computation (ANC), University of Edinburgh, Edinburgh, Scotland
Alessio Paolo Buccino - Center for Inegrative Neurolasticity (CINPLA), Department of Biosciences, Physics, and Informatics, University of Oslo, Oslo, Norway
Jeremy Magland - Center for Computational Biology (CCB), Flatiron Institute, New York, United States
Matthias Hennig - The Institute for Adaptive and Neural Computation (ANC), University of Edinburgh, Edinburgh, Scotland
Samuel Garcia - Centre de Recherche en Neuroscience de Lyon (CRNL), Lyon, France
For any correspondence, contact Cole Hurwitz at colehurwitz@gmail.com
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