Authors

Luis Howell, luisbhowell@gmail.com

Bernd Porr, bernd.porr@glasgow.ac.uk

Citation / DOI

DOI: 10.5281/zenodo.3353396

https://doi.org/10.5281/zenodo.3353396

Installation

via PIP:

pip install py-ecg-detectors [--user]

from source:

python3 setup.py install [--user]

Use the option –user if you don’t have system-wise write permission.

ECG Detector Class Usage

Before the detectors can be used the class must first be initalised with the sampling rate of the ECG recording:

from ecgdetectors import Detectors
detectors = Detectors(fs)

See usage_example.py for an example of how to use the detectors and the documentation here: https://berndporr.github.io/py-ecg-detectors/

r_peaks = detectors.hamilton_detector(unfiltered_ecg)

r_peaks = detectors.christov_detector(unfiltered_ecg)

r_peaks = detectors.engzee_detector(unfiltered_ecg)

r_peaks = detectors.pan_tompkins_detector(unfiltered_ecg)

r_peaks = detectors.swt_detector(unfiltered_ecg)

r_peaks = detectors.two_average_detector(unfiltered_ecg)

r_peaks = detectors.matched_filter_detector(unfiltered_ecg,template_file)

r_peaks = detectors.wqrs_detector(unfiltered_ecg)

Heartrate variability analysis

The module hrv provides a large collection of heartrate variability measures which are methods of the class HRV:

HR(self, rr_samples)
   Calculate heart-rates from R peak samples.

NN20(self, rr_samples)
   Calculate NN20, the number of pairs of successive
   NNs that differ by more than 20 ms.

NN50(self, rr_samples)
   Calculate NN50, the number of pairs of successive
   NNs that differ by more than 50 ms.

RMSSD(self, rr_samples, normalise=False)
   Calculate RMSSD (root mean square of successive differences).

SDANN(self, rr_samples, average_period=5.0, normalise=False)
   Calculate SDANN, the standard deviation of the average
   RR intervals calculated over short periods.

SDNN(self, rr_samples, normalise=False)
   Calculate SDNN, the standard deviation of NN intervals.

SDSD(self, rr_samples)
   Calculate SDSD (standard deviation of successive differences),
   the standard deviation of the successive differences between adjacent NNs.

fAnalysis(self, rr_samples)
   Frequency analysis to calc self.lf, self.hf,
   returns the LF/HF-ratio.

pNN20(self, rr_samples)
   Calculate pNN20, the proportion of NN20 divided by total number of NNs.

pNN50(self, rr_samples)
   Calculate pNN50, the proportion of NN50 divided by total number of NNs.

For parameters and additional info use the python help function:

import hrv
help(hrv)

The example hrv_time_domain_analysis.py calculates the heartrate variability in the timedomain.

Realtime / Causal processing

Most ECG R-peak detectors won’t detect the actual R-peak so the name “R-peak detector” is a misnomer. However in practise this won’t play any role as only the temporal differences between R-peaks play a role. Most detectors work with a threshold which moves the detection forward in time and use causal filters which delay the detection. Only a few detectors do actually a maximum detection but even they will be most likely introducing delays as the ECG will be always filtered by causal filters. In other words most detectors cause a delay between the R peak and its detection. That delay should of course be constant so that the resulting HR and HRV is correct.