def extract_lead_heart_rate(signal, sampling_rate):
# extract heart rate for single-lead ECG: may return empty list
rpeaks, = ecg.hamilton_segmenter(signal=signal,
sampling_rate=sampling_rate)
rpeaks, = ecg.correct_rpeaks(signal=signal,
rpeaks=rpeaks,
sampling_rate=sampling_rate,
tol=0.05)
_, heartrates = tools.get_heart_rate(beats=rpeaks,
sampling_rate=500,
smooth=True,
size=3)
return list(heartrates / 100) # divided by 100
def extractTimeDomain(self, x):
'''
:param x: raw ppg
:return: time domain features of heart beat
'''
try:
onsets, = biosppy.signals.bvp.find_onsets(x, sampling_rate=self.fs)
# compute heart rate
hb_index, hb = st.get_heart_rate(beats=onsets,
sampling_rate=self.fs,
smooth=True,
size=3)
hb_mean = np.mean(hb)
hb_max = np.max(hb)
hb_min = np.min(hb)
hb_std = np.std(hb)
hb_skew = skew(hb)
hb_kurt = kurtosis(hb)
return np.array(
[hb_mean, hb_max, hb_min, hb_std, hb_skew, hb_kurt])
except:
return np.array([])
x[spacing:spacing + len] = data
peak_candidate = np.zeros(len)
peak_candidate[:] = True
for s in range(spacing):
start = spacing - s - 1
h_b = x[start:start + len] # before
start = spacing
h_c = x[start:start + len] # central
start = spacing + s + 1
h_a = x[start:start + len] # after
peak_candidate = np.logical_and(
peak_candidate, np.logical_and(h_c >= h_b, h_c > h_a))
ind = np.argwhere(peak_candidate)
ind = ind.reshape(ind.size)
if limit is not None:
ind = ind[data[ind] > limit]
else:
limit = np.mean(data[ind]) / 2
ind = ind[data[ind] > limit]
return ind
if __name__ == "__main__":
ecg_data, _ = wfdb.rdsamp('data/CPSC/A0002')
qrs_detector = QRSDetectorOffline(ecg_data, frequency=500, verbose=False)
rpeaks = qrs_detector.qrs_peaks_indices
print(rpeaks)
print(tools.get_heart_rate(rpeaks, sampling_rate=500))
def extract_heart_rates(ecg_data, sampling_rate=500):
# extract instant heart rates
qrs_detector = QRSDetectorOffline(ecg_data, frequency=sampling_rate)
_, heart_rates = tools.get_heart_rate(qrs_detector.detected_peaks_indices, sampling_rate=sampling_rate)
return extract_stats(heart_rates / 100)