Eight ECG heartbeat detection algorithms and heartrate variability analysis
Project description
A collection of 8 ECG heartbeat detection algorithms implemented in Python. In addition the module hrv provides tools to analyse heartrate variability.
Citation / DOI
DOI: 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/
Hamilton
Implementation of P.S. Hamilton, “Open Source ECG Analysis Software Documentation”, E.P.Limited, 2002. Usage:
r_peaks = detectors.hamilton_detector(unfiltered_ecg)
Christov
Implementation of Ivaylo I. Christov, “Real time electrocardiogram QRS detection using combined adaptive threshold”, BioMedical Engineering OnLine 2004, vol. 3:28, 2004. Usage:
r_peaks = detectors.christov_detector(unfiltered_ecg)
Engelse and Zeelenberg
Implementation of W. Engelse and C. Zeelenberg, “A single scan algorithm for QRS detection and feature extraction”, IEEE Comp. in Cardiology, vol. 6, pp. 37-42, 1979 with modifications A. Lourenco, H. Silva, P. Leite, R. Lourenco and A. Fred, “Real Time Electrocardiogram Segmentation for Finger Based ECG Biometrics”, BIOSIGNALS 2012, pp. 49-54, 2012. Usage:
r_peaks = detectors.engzee_detector(unfiltered_ecg)
Pan and Tompkins
Implementation of Jiapu Pan and Willis J. Tompkins. “A Real-Time QRS Detection Algorithm”. In: IEEE Transactions on Biomedical Engineering BME-32.3 (1985), pp. 230–236. Usage:
r_peaks = detectors.pan_tompkins_detector(unfiltered_ecg)
Stationary Wavelet Transform
Implementation based on Vignesh Kalidas and Lakshman Tamil. “Real-time QRS detector using Stationary Wavelet Transform for Automated ECG Analysis”. In: 2017 IEEE 17th International Conference on Bioinformatics and Bioengineering (BIBE). Uses the Pan and Tompkins thresolding method. Usage:
r_peaks = detectors.swt_detector(unfiltered_ecg)
Two Moving Average
Implementation of Elgendi, Mohamed & Jonkman, Mirjam & De Boer, Friso. (2010). “Frequency Bands Effects on QRS Detection” The 3rd International Conference on Bio-inspired Systems and Signal Processing (BIOSIGNALS2010). 428-431. Usage:
r_peaks = detectors.two_average_detector(unfiltered_ecg)
Matched Filter
FIR matched filter using template of QRS complex. Uses the Pan and Tompkins thresolding method. The ECG template is a text file where the samples are in a single column. See the templates folder on github for examples. Usage:
r_peaks = detectors.matched_filter_detector(unfiltered_ecg,template_file)
WQRS
Uses the wqrs detector by Zong, GB Moody, D Jiang. Usage:
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.
Project details
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.
Source Distribution
Built Distribution
File details
Details for the file py-ecg-detectors-1.3.5.tar.gz
.
File metadata
- Download URL: py-ecg-detectors-1.3.5.tar.gz
- Upload date:
- Size: 26.1 kB
- Tags: Source
- Uploaded using Trusted Publishing? No
- Uploaded via: twine/4.0.2 CPython/3.10.12
File hashes
Algorithm | Hash digest | |
---|---|---|
SHA256 | 4496597ded7ac46fc6cac139453e6ee419d8143f49cf1205ea2b66f5450d84f7 |
|
MD5 | f7df523f4d9fae955ccec27f6f3b3c69 |
|
BLAKE2b-256 | 952bb9e3370d90b679549ca5a1913fb59da8b8b904273ce9717a7c5f59fd3b25 |
File details
Details for the file py_ecg_detectors-1.3.5-py3-none-any.whl
.
File metadata
- Download URL: py_ecg_detectors-1.3.5-py3-none-any.whl
- Upload date:
- Size: 25.4 kB
- Tags: Python 3
- Uploaded using Trusted Publishing? No
- Uploaded via: twine/4.0.2 CPython/3.10.12
File hashes
Algorithm | Hash digest | |
---|---|---|
SHA256 | cdf5837ea8f496c0090c92ef7691511c50c1dadc38256d680a009734fb27aa8b |
|
MD5 | fd4f71c524d58215c64c774c0b23e2f0 |
|
BLAKE2b-256 | 931067ab25e66467bb568f6418351ae3d3699b7289d16bbaf5556445b433a1c6 |