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https://github.com/berndporr/py-ecg-detectors

Popular ECG QRS detectors written in python
https://github.com/berndporr/py-ecg-detectors

ecg-classification ecg-qrs-detection heart-rate-variability

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Popular ECG QRS detectors written in python

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README 

        
=============

ECG Detectors

=============



A collection of 8 ECG heartbeat detection algorithms implemented in Python.

In addition the module `hrv` provides tools to analyse heartrate variability.



Authors

=======



Luis Howell, [email protected]



Bernd Porr, [email protected]



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:



.. code-block:: python



  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.