Documentation of toolbox physio¶

physio is a python toolbox to analyse physiological signals : respiration and ECG

Authors¶

physio is developped by Samuel Garcia, Valentin Ghibaudo and Jules Granget.

This toolbox is used by the CMO team in the Centre de recherche en Neurosciences de Lyon (CRNL)

Manuscript¶

This work has been published at eNeuro : https://www.eneuro.org/content/10/10/ENEURO.0197-23.2023

Features¶

respiration cycle detection

respiration cycle features (amplitude, duration, volumes …)

simple preprocess on signal : filter using scipy and smoothing

ecg peak detection

ecg/hrv metrics (time domain and frequency domain)

rsa : new approach to get cycle-by-cycle metrics

cyclic deformation machinery : a simple stretcher of any signal to cycle template

simple reader of micromed and brainvision using neo

“auto-magic” parameters for different species

Contents:

orphan:

Examples¶

Here some generated examples.

They are downloadable as notebooks or python scripts.

Getting started tutorial

Respiration tutorial

ECG tutorial

Cyclic deformation tutorial

RSA tutorial

Cardio-respiratory synchronization

Gallery generated by Sphinx-Gallery

Installation¶

Installation from pypi:

pip install physio

Installation from sources:

git clone https://github.com/samuelgarcia/physio.git
cd physio
pip install -e .

Update from source:

cd physio
git pull origin main