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finding peak values and corresponding timestamps

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I'm trying to use scipy to identify peaks of my signals and try to get the corresponding timestamps of those peaks. Used scipy.signal.find_peaks (https://docs.scipy.org/doc/scipy/reference/generated/scipy.signal.find_peaks.html)

I have a large data file with data (Numpy ndarray) that contains all the signal values with sampling rate 200, and times with all the corresponding sample numbers of each signal.

To have a snippet of the data,

# len(data[0]) is 1028721
data[0] = array([0.00333048, 0.00333095, 0.00333494, ..., 0.0062428 , 0.00624095,
 0.00624318])

# len(times) is 1028721
times = array([0.000000e+00, 5.000000e-03, 1.000000e-02, ..., 5.143590e+03,
 5.143595e+03, 5.143600e+03])

so far I got to get the peak points (mostly from scipy examples) using:

import matplotlib.pyplot as plt
from scipy.signal import find_peaks, peak_prominences
peaks, properties = find_peaks(data[0], height=None, distance = 200)

plt.plot(data[0])
plt.plot(peaks, data[0][peaks], "x")

If I plot the above, I do get a bunch of 'x' marks on the peak points, which is great so far.
However, when I try to get the values of each peak, if I do peaks or properties, peaks returns an index which I do not know how it was derived, and properties is just an empty dictionary.

I was wondering if I could get some help on actually getting each peak's signal values. I know it's only a snippet of my codes shown above, but was wondering if I could get on help on utilizing the find_peaks better.

Ideally, I was thinking getting like peaks[0] or properties['height'] returning me the signal values.

Then, I was wondering how I could map on these peak points to the original times ndarray to get the corresponding timestamps.

Any pointers would be really appreciated!!

python scipy signal-processing

share|improve this question

asked Mar 8 at 0:08

VinciVinci

8319

add a comment | 

0

I'm trying to use scipy to identify peaks of my signals and try to get the corresponding timestamps of those peaks. Used scipy.signal.find_peaks (https://docs.scipy.org/doc/scipy/reference/generated/scipy.signal.find_peaks.html)

I have a large data file with data (Numpy ndarray) that contains all the signal values with sampling rate 200, and times with all the corresponding sample numbers of each signal.

To have a snippet of the data,

# len(data[0]) is 1028721
data[0] = array([0.00333048, 0.00333095, 0.00333494, ..., 0.0062428 , 0.00624095,
 0.00624318])

# len(times) is 1028721
times = array([0.000000e+00, 5.000000e-03, 1.000000e-02, ..., 5.143590e+03,
 5.143595e+03, 5.143600e+03])

so far I got to get the peak points (mostly from scipy examples) using:

import matplotlib.pyplot as plt
from scipy.signal import find_peaks, peak_prominences
peaks, properties = find_peaks(data[0], height=None, distance = 200)

plt.plot(data[0])
plt.plot(peaks, data[0][peaks], "x")

If I plot the above, I do get a bunch of 'x' marks on the peak points, which is great so far.
However, when I try to get the values of each peak, if I do peaks or properties, peaks returns an index which I do not know how it was derived, and properties is just an empty dictionary.

I was wondering if I could get some help on actually getting each peak's signal values. I know it's only a snippet of my codes shown above, but was wondering if I could get on help on utilizing the find_peaks better.

Ideally, I was thinking getting like peaks[0] or properties['height'] returning me the signal values.

Then, I was wondering how I could map on these peak points to the original times ndarray to get the corresponding timestamps.

Any pointers would be really appreciated!!

python scipy signal-processing

share|improve this question

asked Mar 8 at 0:08

VinciVinci

8319

add a comment | 

I'm trying to use scipy to identify peaks of my signals and try to get the corresponding timestamps of those peaks. Used scipy.signal.find_peaks (https://docs.scipy.org/doc/scipy/reference/generated/scipy.signal.find_peaks.html)

I have a large data file with data (Numpy ndarray) that contains all the signal values with sampling rate 200, and times with all the corresponding sample numbers of each signal.

To have a snippet of the data,

# len(data[0]) is 1028721
data[0] = array([0.00333048, 0.00333095, 0.00333494, ..., 0.0062428 , 0.00624095,
 0.00624318])

# len(times) is 1028721
times = array([0.000000e+00, 5.000000e-03, 1.000000e-02, ..., 5.143590e+03,
 5.143595e+03, 5.143600e+03])

so far I got to get the peak points (mostly from scipy examples) using:

import matplotlib.pyplot as plt
from scipy.signal import find_peaks, peak_prominences
peaks, properties = find_peaks(data[0], height=None, distance = 200)

plt.plot(data[0])
plt.plot(peaks, data[0][peaks], "x")

If I plot the above, I do get a bunch of 'x' marks on the peak points, which is great so far.
However, when I try to get the values of each peak, if I do peaks or properties, peaks returns an index which I do not know how it was derived, and properties is just an empty dictionary.

I was wondering if I could get some help on actually getting each peak's signal values. I know it's only a snippet of my codes shown above, but was wondering if I could get on help on utilizing the find_peaks better.

Ideally, I was thinking getting like peaks[0] or properties['height'] returning me the signal values.

Then, I was wondering how I could map on these peak points to the original times ndarray to get the corresponding timestamps.

Any pointers would be really appreciated!!

python scipy signal-processing

share|improve this question

asked Mar 8 at 0:08

VinciVinci

8319

# len(data[0]) is 1028721
data[0] = array([0.00333048, 0.00333095, 0.00333494, ..., 0.0062428 , 0.00624095,
 0.00624318])

# len(times) is 1028721
times = array([0.000000e+00, 5.000000e-03, 1.000000e-02, ..., 5.143590e+03,
 5.143595e+03, 5.143600e+03])

import matplotlib.pyplot as plt
from scipy.signal import find_peaks, peak_prominences
peaks, properties = find_peaks(data[0], height=None, distance = 200)

plt.plot(data[0])
plt.plot(peaks, data[0][peaks], "x")

share|improve this question

asked Mar 8 at 0:08

VinciVinci

8319

share|improve this question

asked Mar 8 at 0:08

VinciVinci

8319

asked Mar 8 at 0:08

VinciVinci

8319

asked Mar 8 at 0:08

VinciVinci

8319