The Python Toolbox for Neurophysiological Signal Processing.
Project description
The Python Toolbox for Neurophysiological Signal Processing (EDA, ECG, PPG, EMG, EEG…)
This package is the continuation of NeuroKit1. It’s a user-friendly package with which you can analyze your physiological data with only two lines of code.
Installation
To install NeuroKit2, run this command in your terminal:
pip install https://github.com/neuropsychology/neurokit/zipball/masterContribution
NeuroKit2 is a collaborative project with a community of contributors with all levels of development expertise. Thus, if you have some ideas for improvement, new features, or just want to learn Python and do something useful at the same time, do not hesitate and check out the CONTRIBUTION guide.
Documentation
Click on the links above and check out our tutorials:
Tutorials
Examples
You can try out these examples directly in your browser by clicking here.
Don’t know which tutorial is suited for your case? Follow this flowchart:
Citation
You can run:
nk.cite()You can cite NeuroKit2 as follows:
- Makowski, D., Pham, T., Lau, Z. J., Brammer, J. C., Pham, H., Lesspinasse, F.,
Schölzel, C., & S H Chen, A. (2020). NeuroKit2: A Python Toolbox for Neurophysiological
Signal Processing. Retrieved March 28, 2020, from https://github.com/neuropsychology/NeuroKit
Full bibtex reference:
@misc{neurokit2,
doi = {10.5281/ZENODO.3597887},
url = {https://github.com/neuropsychology/NeuroKit},
author = {Makowski, Dominique and Pham, Tam and Lau, Zen J. and Brammer, Jan C. and Pham, Hung and Lespinasse, Fran\c{c}ois and Schölzel, Christopher and S H Chen, Annabel},
title = {NeuroKit2: A Python Toolbox for Neurophysiological Signal Processing},
publisher = {Zenodo},
year = {2020},
}Overview
Simulate physiological signals
import numpy as np
import pandas as pd
import neurokit2 as nk
# Generate synthetic signals
ecg = nk.ecg_simulate(duration=10, heart_rate=70)
ppg = nk.ppg_simulate(duration=10, heart_rate=70)
rsp = nk.rsp_simulate(duration=10, respiratory_rate=15)
eda = nk.eda_simulate(duration=10, scr_number=3)
emg = nk.emg_simulate(duration=10, burst_number=2)
# Visualise biosignals
data = pd.DataFrame({"ECG": ecg,
"PPG": ppg,
"RSP": rsp,
"EDA": eda,
"EMG": emg})
nk.signal_plot(data, subplots=True)
Electrodermal Activity (EDA)
# Generate 10 seconds of EDA signal (recorded at 250 samples / second) with 2 SCR peaks
eda = nk.eda_simulate(duration=10, sampling_rate=250, scr_number=2 drift=0.01)
# Process it
signals, info = nk.eda_process(eda, sampling_rate=250)
# Visualise the processing
nk.eda_plot(signals, sampling_rate=250)
Cardiac activity (ECG)
# Generate 15 seconds of ECG signal (recorded at 250 samples / second)
ecg = nk.ecg_simulate(duration=15, sampling_rate=250, heart_rate=70)
# Process it
signals, info = nk.ecg_process(ecg, sampling_rate=250)
# Visualise the processing
nk.ecg_plot(signals, sampling_rate=250)
Respiration (RSP)
# Generate one minute of respiratory (RSP) signal (recorded at 250 samples / second)
rsp = nk.rsp_simulate(duration=60, sampling_rate=250, respiratory_rate=15)
# Process it
signals, info = nk.rsp_process(rsp, sampling_rate=250)
# Visualise the processing
nk.rsp_plot(signals, sampling_rate=250)
Electromyography (EMG)
# Generate 10 seconds of EMG signal (recorded at 250 samples / second)
emg = nk.emg_simulate(duration=10, sampling_rate=250, burst_number=3)
# Process it
signals = nk.emg_process(emg, sampling_rate=250)
# Visualise the processing
nk.emg_plot(signals, sampling_rate=250)
Photoplethysmography (PPG/BVP)
# Generate 15 seconds of PPG signal (recorded at 250 samples / second)
ppg = nk.ppg_simulate(duration=15, sampling_rate=250, heart_rate=70)Electrogastrography (EGG)
Consider helping us develop it!
Alternatives
Here’s a list of great alternative packages that you should check out:
General
ECG
EDA
BreatheEasyEDA (matlab)
EDA (matlab)
EEG
Eye-Tracking
News
0.0.1 (2019-10-29)
First release on PyPI.
Release history Release notifications | RSS feed
Download files
Download the file for your platform. If you're not sure which to choose, learn more about installing packages.
