Greetings, Every One. I am bit confused about usage of wavelet decomposition for noise removal. I am finding Peak to peak interval from a PPG signal. But when i use wavelet decomposition, my signal get shortened. This effect the Peak to Peak interval value. But when i denoise the signal simply by using butterworth low pass filter, every thing work well (as i think).
I have attached the screen shot and i am getting the PP interval as
24, 23, 15,25,25 according to attach image
Here is the code in python
sig_detrend=signal.detrend(sig)
wavelet_ppg = sig_detrend.values
wavelets = pywt.wavedec(sig_detrend,'db4', level=5)
fig, ax = plt.subplots(len(wavelets)+1)
ax[0].plot(sig_detrend)
for i, wavelet in enumerate(wavelets):
ax[i+1].plot(wavelet)
Dear Talha,
These signals are quiet low-frequency and too simple to be denoised by wavelet.
I did not see the py libs of wavelet. My guess is your data reduction is due to using "Discrete Wavelet Transform". You can search the py libs for continuous wavelet equations such that your signals would remain the same dimensions, just slightly higher computation it has.
Just like you mentioned, a simple filter would be suffice to do this task.
You can post your code on stackoverflow.com and someone will most likely respond quickly (so many py developers are there).
Best regards,
J.
Talha, I would recommend you to look at the papers by M. Elad or D. Donoho on denoising with wavelets.
Best,
Azita
Talha,
I havent used python for denoising. However, conceptually I am sure it's not much different than Matlab.
I suggest reading Matlab Wavelet Use's guide and going through its examples. It is a short read and explains all the hyper parameters you need to modify to get your desired results, e.g. threshold selection, soft/hard thresholding.
Look at page 515-548 of this user guide:
http://profesores.elo.utfsm.cl/~mzanartu/IPD414/Docs/wavelet_ug.pdf
Dear colleagues, we have recently developed an algorithm at the Acoustics Research Institute which recovers a signal mixed with noise from the zeros of the wavelet transform (we use analytic wavelets to make the connection to some key probability concepts). I don't know if this is useful for your problem, but it is a new method for noise removal using wavelets.
@j. Rafiee yes its a low frequency ppg signal measured using a low cost pulse sensor. Surely i will check continuous wavelet transform. I have not tried them before. Actually most of related papers are using dwt db4 , so i think i should give it a try, though simply low cost filter work well for me
Dear Talha,
You are absolutely right! I only mentioned CWT since you were looking for "my signal get shortened", which is due to using DWT.
In fact, DWT works fine since your sampling frequency looks to be comparatively high, thereby a bit data reduction would also reduce computational expenses as well, in case it would matter. And python is certainly much easier and better way to go.
I'm sure with your programming skills, it will be a piece of cake!
Best regards,
J.
Just adding some useful links:
https://pywavelets.readthedocs.io/
https://pywavelets.readthedocs.io/en/latest/ref/dwt-discrete-wavelet-transform.html
https://dsp.stackexchange.com/questions/15823/feature-extraction-reduction-using-dwt
https://stackoverflow.com/questions/19576149/is-there-a-solid-method-for-wavelet-analysis-in-python
https://www.oreilly.com/library/view/python-data-analysis/9781785282287/ch06s13.html
https://github.com/PyWavelets/pywt
https://docs.scipy.org/doc/scipy-0.16.0/reference/generated/scipy.signal.cwt.html
http://mlpy.sourceforge.net/docs/3.3/wavelet.html
https://pypi.org/project/PyWavelets/
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