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Set of tools to analyze neuronal activity from spiketimes

Project description

spikelib

A Python package for reading, manipulating, analyzing and visualize spike sorted extracellular data. The spikelib was designed to give a suite of tools that allow us to analyze spiketrains from multi-electrode array (MEA) recordings obtained from some spike sorting software (for example spiking-circus).

Installation

Dependencies

This is the list dependencies

pip install numpy scipy matplotlib scikit-learn peakutils pandas h5py lmfit

Optionally you can install neuroshare to read .mcd files. But it only work on Python 2.7

pip install neuroshare

Install

There are 2 ways to install spikelib, from Pypi or github. The easier way is install using pip.

pip install spikelib

Alternatively, you can install the latest version of spikelib from github running the following commands:

git clone https://github.com/creyesp/spikelib
cd spikelib
python setup.py [install, develop]

Where the develop argument should be used if you want to modify the code.

Project details


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