def check_qrs_detection():
from wfdbtools import rdsamp, rdann
import subprocess
test_record = '../samples/format212/100'
qrslead = 2
data, info = rdsamp(test_record)
qrsdetector = QRSDetector(data, info['samp_freq'])
qrspeaks = qrsdetector.qrs_detect(qrslead)
print 'Found %s QRS complexes' %(len(qrspeaks))
qrsdetector.write_ann(os.path.abspath(test_record) + '.test')
ref_qrs = rdann(os.path.abspath(test_record), 'atr')
print ref_qrs.shape
print qrspeaks[:10]
print ref_qrs[:10, :1]
pylab.plot(data[:, qrslead])
for r in qrspeaks:
pylab.plot(r, 1.5, 'xr')
for r in ref_qrs[:, 1]:
pylab.plot(r, 1.8, 'ob')
pylab.show()
print subprocess.check_output(['bxb','-r', os.path.abspath(test_record), '-a', 'atr', 'test'])
def check_qrs_detection():
from wfdbtools import rdsamp, rdann
import subprocess
test_record = '../samples/format212/100'
qrslead = 2
data, info = rdsamp(test_record)
qrsdetector = QRSDetector(data, info['samp_freq'])
qrspeaks = qrsdetector.qrs_detect(qrslead)
print 'Found %s QRS complexes' % (len(qrspeaks))
qrsdetector.write_ann(os.path.abspath(test_record) + '.test')
ref_qrs = rdann(os.path.abspath(test_record), 'atr')
print ref_qrs.shape
print qrspeaks[:10]
print ref_qrs[:10, :1]
pylab.plot(data[:, qrslead])
for r in qrspeaks:
pylab.plot(r, 1.5, 'xr')
for r in ref_qrs[:, 1]:
pylab.plot(r, 1.8, 'ob')
pylab.show()
print subprocess.check_output(
['bxb', '-r',
os.path.abspath(test_record), '-a', 'atr', 'test'])
def rdsamp_test():
"""test wfdbtools.rdsamp"""
data, info = rdsamp(testrecord)
assert info['samp_freq'] == 360
assert info['signal_names'] == ['MLII', 'V5']
assert len(data) == 650000
assert data[0, 2:].tolist() == [-0.145, -0.065]
assert data[-1, 2:].tolist() == [-1.28, 0.]
assert int(data[-1, 1]) == 1805
data, info = rdsamp(testrecord, 10, 20)
assert len(data) == 3600
assert data[0, 2:].tolist() == [-0.39, -0.275]
assert data[-1, 2:].tolist() == [-0.42, -0.4]
data, info = rdsamp(testrecord, 10, interval=10)
assert len(data) == 3600
assert data[0, 2:].tolist() == [-0.39, -0.275]
assert data[-1, 2:].tolist() == [-0.42, -0.4]
def rdsamp_test():
"""test wfdbtools.rdsamp"""
data, info = rdsamp(testrecord)
assert info['samp_freq'] == 360
assert info['signal_names'] == ['MLII', 'V5']
assert len(data) == 650000
assert data[0, 2:].tolist() == [-0.145, -0.065]
assert data[-1, 2:].tolist() == [-1.28, 0.]
assert int(data[-1, 1]) == 1805
data, info = rdsamp(testrecord, 10, 20)
assert len(data) == 3600
assert data[0,2:].tolist() == [-0.39, -0.275]
assert data[-1, 2:].tolist() == [-0.42, -0.4]
data, info = rdsamp(testrecord, 10, interval=10)
assert len(data) == 3600
assert data[0,2:].tolist() == [-0.39, -0.275]
assert data[-1, 2:].tolist() == [-0.42, -0.4]
def test():
from wfdbtools import rdsamp
record = '../samples/format212/100'
data, info = rdsamp(record, 0, 30)
print 'loaded data', data.shape
print 'Info', info
ecg = ECG(data, info)
qrslead = 2 # data is an array with cols 0 and 1 representing times and 2 and 3 being two signals
qrspeaks = ecg.get_qrspeaks(qrslead)
print 'found qrspeaks', len(qrspeaks)
pylab.plot(ecg.data[:, qrslead])
for r in qrspeaks:
pylab.plot(r, data[r, qrslead], 'xr')
pylab.show()
def test():
from wfdbtools import rdsamp
record = '../samples/format212/100'
data, info = rdsamp(record, 0, 30)
print 'loaded data', data.shape
print 'Info', info
ecg = ECG(data, info)
qrslead = 2 # data is an array with cols 0 and 1 representing times and 2 and 3 being two signals
qrspeaks = ecg.get_qrspeaks(qrslead)
print 'found qrspeaks', len(qrspeaks)
pylab.plot(ecg.data[:,qrslead])
for r in qrspeaks:
pylab.plot(r, data[r, qrslead], 'xr')
pylab.show()
''' Created on Jan 27, 2012 @author: sergio ''' #!/usr/bin/env python from wfdbtools import rdsamp, rdann, plot_data from pprint import pprint import pylab from scipy import signal import numpy ###Senal record = '104' data, info = rdsamp(record, 0, 6) ann = rdann(record, 'atr', 0, 6) time = data[:, 1] #in seconds. sig1 = data[:, 2] sig2 = data[:, 3] ann1 = ann[:, 0] ann2 = ann[:, 1] Fs = info['samp_freq'] ###################### # FILTER # a[0]*y[n] = b[0]*x[n] + b[1]*x[n-1] + ... + b[nb]*x[n-nb] # - a[1]*y[n-1] - ... - a[na]*y[n-na]
class CustReader:
"""
Reader for the custom ecg format
"""
def __init__(self):
self.data = None
self.info = None
def read(filename):
infofile = os.path.splitext(filename)[0] + '.inf'
data = scipy.load(filename)
info = yaml.load(open(infofile))
if __name__ == '__main__':
from wfdbtools import rdsamp, rdann
app = wx.App(False)
controller = Controller(app)
testrec = '../samples/format212/100'
data, info = rdsamp(testrec, 0, 60)
data = data[:, [2, 3]] # remove first 2 cols
ann = rdann(testrec, 'atr', 0, 60)
ann = ann[:, [0, 2]] # remove second col
controller.load(data, info, ann)
app.MainLoop()
''' Created on Jan 27, 2012 @author: sergio ''' #!/usr/bin/env python from wfdbtools import rdsamp, rdann, plot_data from pprint import pprint import pylab from scipy import signal import numpy ###Senal record = '104' data, info = rdsamp(record, 0, 6) ann = rdann(record, 'atr', 0, 6) time = data[:, 1] #in seconds. sig1 = data[:, 2] sig2 = data[:, 3] ann1 = ann[:, 0] ann2 = ann[:, 1] Fs = info['samp_freq'] ###################### # FILTER # a[0]*y[n] = b[0]*x[n] + b[1]*x[n-1] + ... + b[nb]*x[n-nb] # - a[1]*y[n-1] - ... - a[na]*y[n-na]
Created on Jan 27, 2012 @author: sergio ''' from wfdbtools import rdsamp, rdann import numpy from buffer import buffer as cola from pylab import plot, show, subplot, stem, axis import hrvarray import time as timer ### Senal record = '104' start = 210 stop = 320 data, info = rdsamp(record, start, stop) ann = rdann(record, 'atr', start, stop) time = data[:, 1] #in seconds. signal1 = data[:, 2] signal2 = data[:, 3] ann1 = ann[:, 0] ann2 = ann[:, 1] Fs = info['samp_freq'] ### Parametros Nwindow = int(0.15 * Fs) # 150ms ###
#subplot(212)
#plot(time,umbral,'r')
#plot(time, signal_integrated, 'k')
#axis([178, 188, 0, 66000000])
# show()
return qrs
if __name__ == '__main__':
### Parametros
record = '104'
start = 0 #0#175
stop = 1000 #40#190
### Senal
data, info = rdsamp(record, start, stop)
ann = rdann(record, 'atr', start, stop)
time = data[:, 1] #in seconds.110358
signal1 = data[:, 2]
signal2 = data[:, 3]
ann1 = ann[:, 0]
ann2 = ann[:, 1]
Fs = info['samp_freq']
print "Fs: " + str(Fs)
print "Tiempo total de la captura: " + str(info['samp_count'] / float(Fs))
qrs = detector(signal1, Fs, ann1, time, start, stop)
coincidencias = 0
''' Created on Feb 15, 2012 @author: sergio ''' from wfdbtools import rdsamp, rdann, plot_data import numpy from buffer import buffer as cola from pylab import plot, show, subplot, stem ### Senal record = '104' data, info = rdsamp(record, 201, 520) ann = rdann(record, 'atr', 201, 520) time = data[:, 1] #in seconds. signal1 = data[:, 2] signal2 = data[:, 3] plot(time, signal1) show()
self.data = None
self.info = None
def read(filename):
infofile = os.path.splitext(filename)[0] + '.inf'
data = scipy.load(filename)
info = yaml.load(open(infofile))
if __name__ == '__main__':
from wfdbtools import rdsamp, rdann
app = wx.App(False)
controller = Controller(app)
testrec = '../samples/format212/100'
data, info = rdsamp(testrec, 0, 60)
data = data[:, [2,3]] # remove first 2 cols
ann = rdann(testrec, 'atr', 0, 60)
ann = ann[:, [0,2]] # remove second col
controller.load(data, info, ann)
app.MainLoop()
import sys
import regex as re
import pandas as pd
import gotstools as gt
from pylab import *
import wfdbtools as wfdb
def vmagnitude(v):
"""
Returns the magnitude of a tridimensional vector signal.
:param v: (ndarray-like)
:return: The magnitude of the signal.
"""
return np.sqrt(v[:, 0]**2 + v[:, 1]**2 + v[:, 2]**2)
seq_data, seq_info = wfdb.rdsamp('../examples/data/EcgBeatDetection/100',
start=0,
end=10)
t, s = seq_data[:, 1], seq_data[:, 2]
cfg = {
"pre_processing": "☲ 5 50 360",
"connotation": "† 0.01",
"expression": "\+-"
}
matches = gt.ssts(s, cfg, report='full')
''' Created on Feb 15, 2012 @author: sergio ''' from wfdbtools import rdsamp, rdann, plot_data import numpy from buffer import buffer as cola from pylab import plot, show, subplot, stem ### Senal record = '104' data, info = rdsamp(record, 201, 520) ann = rdann(record, 'atr', 201, 520) time = data[:, 1] #in seconds. signal1 = data[:, 2] signal2 = data[:, 3] plot(time,signal1) show()