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updated multiscale_entropy to allow changing the sample_length that i… #4

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updated multiscale_entropy to allow changing the sample_length that i…
gattia Apr 6, 2018
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Updated multiscale_entropy - forgot to change scale_length within fun…
gattia Apr 6, 2018
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12 changes: 7 additions & 5 deletions pyentrp/entropy.py
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Original file line number Diff line number Diff line change
Expand Up @@ -141,32 +141,34 @@ def sample_entropy(time_series, sample_length, tolerance=None):
return se


def multiscale_entropy(time_series, sample_length, tolerance):
def multiscale_entropy(time_series, scale_factor, tolerance, sample_length=2):
"""Calculate the Multiscale Entropy of the given time series considering
different time-scales of the time series.

Args:
time_series: Time series for analysis
sample_length: Bandwidth or group of points
scale_factor: Calculate MSE upto this sized scale factor
sample_length: Number of sequential points of the time series - input to sample_entropy
tolerance: Tolerance (default = 0.1...0.2 * std(time_series))

Returns:
Vector containing Multiscale Entropy

Reference:
[1] http://en.pudn.com/downloads149/sourcecode/math/detail646216_en.html
[2] https://dbiom.org/files/publications/Peng_MultiscaleEntropyAnalysisComplexPhysiologicTimeSeries.pdf
"""
n = len(time_series)
mse = np.zeros((1, sample_length))
mse = np.zeros((1, scale_factor))

for i in range(sample_length):
for i in range(scale_factor):
b = int(np.fix(n / (i + 1)))
temp_ts = [0] * int(b)
for j in range(b):
num = sum(time_series[j * (i + 1): (j + 1) * (i + 1)])
den = i + 1
temp_ts[j] = float(num) / float(den)
se = sample_entropy(temp_ts, 1, tolerance)
se = sample_entropy(temp_ts, sample_length, tolerance)
mse[0, i] = se

return mse[0]
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