ephysiopy 1.5.32

Analysis of electrophysiological data recorded with the Axona or OpenEphys recording systems

## Synopsis

Tools for the analysis of electrophysiological data collected with the Axona or openephys recording systems.

## Installation

ephysiopy requires python3.6 or greater. The easiest way to install is using pip:

> python3 -m pip install dacq2py

Or similar.

This will install all the pre-requisites, which are as follows:

• numpy

• scipy

• matplotlib

• scikits-learn

• [astropy](http://www.astropy.org/) (for NaN-friendly convolution)

• skimage

• [mahotas](http://mahotas.readthedocs.org/en/latest/)

• h5py

I haven’t yet tried this in a conda like environment but a quick google shows it should be pretty easy.

## Code Example

Main entry class is Trial contained in dacq2py_util i.e.

` import dacq2py_util T = dacq2py_util.Trial('/path/to/dataset/mytrial') `

The “usual” Axona dataset includes the following files:

• mytrial.set

• mytrial.1

• mytrial.2

• mytrial.3

• mytrial.4

• mytrial.pos

• mytrial.eeg

Note that you shouldn’t specify a suffix when constructing the filename in the code example above.

You can now start analysing your data! i.e.

` T.plotEEGPower() T.plotMap(tetrode=1, cluster=4) `

## Motivation

Analysis using Axona’s Tint cluster cutting program or phy/ phy2 (openephys) is great but limited. This extends that functionality.

Optional packages include:

• [klustakwik](https://github.com/klusta-team/klustakwik)

Download the files and extract to a folder and make sure it’s on your Python path

## Contributors

Robin Hayman.

## License

Do what you want license.