How to use the biosppy.signals.ecg.christov_segmenter function in biosppy

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github ismorphism / DeepECG / Dense_ECG.py View on Github external
target_train[i] = 1
    elif Train_data.loc[Train_data[0] == mats[i][:6], 1].values == 'O':
        target_train[i] = 2
    else:
        target_train[i] = 3

Label_set = np.zeros((len(mats), number_of_classes))
for i in range(np.shape(target_train)[0]):
    dummy = np.zeros((number_of_classes))
    dummy[int(target_train[i])] = 1
    Label_set[i, :] = dummy

inputs = 60 #Previus value for 9k check is 95
X_new = np.zeros((size, inputs))
for i in range(size):
    out = ecg.christov_segmenter(signal=X[i, :], sampling_rate=300.)
    A = np.hstack((0, out[0][:len(out[0]) - 1]))
    B = out[0]
    dummy = np.lib.pad(B - A, (0, inputs - len(B)), 'constant', constant_values=(0))
    X_new[i, :] = dummy

print('All is OK')
X = X_new
X = (X - X.mean())/(X.std())
Label_set = Label_set[:size, :]


# X_new = np.zeros((size, check))
# Label_new = np.zeros((size, 4))
# stop = 0
# j = -1
# for i in range(np.shape(X)[0]):
github ankur219 / ECG-Arrhythmia-classification / app.py View on Github external
#ts = int(str(path)[index1:index2])
        APC, NORMAL, LBB, PVC, PAB, RBB, VEB = [], [], [], [], [], [], []
        output.append(str(path))
        result = {"APC": APC, "Normal": NORMAL, "LBB": LBB, "PAB": PAB, "PVC": PVC, "RBB": RBB, "VEB": VEB}

        
        indices = []
        
        kernel = np.ones((4,4),np.uint8)
        
        csv = pd.read_csv(path)
        csv_data = csv[' Sample Value']
        data = np.array(csv_data)
        signals = []
        count = 1
        peaks =  biosppy.signals.ecg.christov_segmenter(signal=data, sampling_rate = 200)[0]
        for i in (peaks[1:-1]):
           diff1 = abs(peaks[count - 1] - i)
           diff2 = abs(peaks[count + 1]- i)
           x = peaks[count - 1] + diff1//2
           y = peaks[count + 1] - diff2//2
           signal = data[x:y]
           signals.append(signal)
           count += 1
           indices.append((x,y))

            
        for count, i in enumerate(signals):
            fig = plt.figure(frameon=False)
            plt.plot(i) 
            plt.xticks([]), plt.yticks([])
            for spine in plt.gca().spines.values():
github Aiwiscal / ECG-ML-DL-Algorithm-Python / rpeak_seg_simple_v1.0.py View on Github external
def test_rpeaks_simple(data_path):
    signal, mdata = load_txt(data_path)
    logging.info("--------------------------------------------------")
    logging.info("载入信号-%s, 长度 = %d " % (data_path, len(signal)))
    fs = 360  # 信号采样率 360 Hz
    logging.info("调用 christov_segmenter 进行R波检测 ...")
    tic = time.time()
    rpeaks = ecg.christov_segmenter(signal, sampling_rate=fs)
    toc = time.time()
    logging.info("完成. 用时: %f 秒. " % (toc - tic))
    # 以上这种方式返回的rpeaks类型为biosppy.utils.ReturnTuple, biosppy的内置类
    logging.info("直接调用 christov_segmenter 返回类型为 " + str(type(rpeaks)))

    # 得到R波位置序列的方法:
    # 1) 取返回值的第1项:
    logging.info("使用第1种方式取R波位置序列 ... ")
    rpeaks_indices_1 = rpeaks[0]
    logging.info("完成. 结果类型为 " + str(type(rpeaks_indices_1)))
    # 2) 调用ReturnTuple的as_dict()方法,得到Python有序字典(OrderedDict)类型
    logging.info("使用第2种方式取R波位置序列 ... ")
    rpeaks_indices_2 = rpeaks.as_dict()
    #    然后使用说明文档中的参数名(这里是rpeaks)作为key取值。
    rpeaks_indices_2 = rpeaks_indices_2["rpeaks"]
    logging.info("完成. 结果类型为 " + str(type(rpeaks_indices_2)))