python code for CNN LSTM
import pandas as pd
df = pd.read_csv('audiology.csv', sep=",")
from keras.models import Model,Sequential
from tensorflow.keras import optimizers
from keras.layers import Input,Conv1D,BatchNormalization,MaxPooling1D,LSTM,Dense,Activation,Layer
from tensorflow.keras.utils import to_categorical
import keras.backend as K
import argparse
from keras.callbacks import EarlyStopping
from keras.callbacks import ModelCheckpoint
from keras.models import load_model
from sklearn.preprocessing import OneHotEncoder
import numpy as np
Pre-processing
X = df.iloc[:, 0:69]
y = df.iloc[:, 69]
from sklearn.preprocessing import OrdinalEncoder
ord_enc = OrdinalEncoder()
X = ord_enc.fit_transform(X)
onehotencoder = OneHotEncoder()
y=y.values.reshape(-1,1)
y= onehotencoder.fit_transform(y).toarray()
X = np.array(X)
def loadData(x_tr,x_t,x_val,y_tr,y_t,y_val):
x_tr = x_tr.reshape(-1,x_tr.shape[1],1)
x_t = x_t.reshape(-1,x_t.shape[1],1)
x_val = x_val.reshape(-1,x_val.shape[1],1)
y_tr = y_tr
y_t = y_t
y_val = y_val
return x_tr,y_tr,x_t,y_t,x_val,y_val
x_tr,y_tr,x_t,y_t,x_val,y_val = loadData(x_tr,x_t,x_val,y_tr,y_t,y_val)
split data into training, testing and validation
from sklearn.model_selection import train_test_split
x_tr, x_t, y_tr, y_t = train_test_split( X, y, test_size=0.33, random_state=42)
x_tr, x_val, y_tr, y_val = train_test_split(x_tr,y_tr,test_size = 0.25,train_size =0.75)
CNN attention layer
class attention(Layer):
def __init__(self, return_sequences=True):
self.return_sequences = return_sequences
super(attention,self).__init__()
def build(self, input_shape):
self.W=self.add_weight(name="att_weight", shape=(input_shape[-1],1),
initializer="normal")
self.b=self.add_weight(name="att_bias", shape=(input_shape[1],1),
initializer="zeros")
super(attention,self).build(input_shape)
def call(self, x):
e = K.tanh(K.dot(x,self.W)+self.b)
a = K.softmax(e, axis=1)
output = x*a
if self.return_sequences:
return output
return K.sum(output, axis=1)
Parameter setup
parser = argparse.ArgumentParser()
args, _ = parser.parse_known_args()
args.num_fc =64
args.batch_size =4
args.num_epochs = 1000
args.learning_rate=0.0001 args.decay=1e-6
args.momentum = 0.9
input_shape=x_tr.shape[1:]
num_classes=len(np.unique(np.argmax(y_tr, 1)))
CNN model
from keras.layers import Embedding
from keras.layers import Bidirectional
model = Sequential()
model.add(Conv1D(filters = 64,kernel_size = (3),strides=1,padding='same',data_format='channels_last',input_shape=input_shape))
model.add(BatchNormalization())
model.add(Activation('elu'))
model.add(MaxPooling1D(pool_size = 4, strides = 4))
model.add(Bidirectional(LSTM(32, return_sequences=True)))
model.add(Conv1D(filters=64, kernel_size = 3, strides=1,padding='same'))
model.add(BatchNormalization())
model.add(Activation('elu'))
model.add(MaxPooling1D(pool_size = 1, strides = 4))
model.add(attention(return_sequences=True)) # receive 3D and output 3D
model.add(Conv1D(filters=128, kernel_size = 3, strides=1,padding='same'))
model.add(BatchNormalization())
model.add(Activation('relu'))
model.add(MaxPooling1D(pool_size = 1, strides = 4))
model.add(attention(return_sequences=True)) # receive 3D and output 3D
model.add(Conv1D(filters=128, kernel_size = 3, strides=1,padding='same'))
model.add(BatchNormalization())
model.add(Activation('relu'))
model.add(MaxPooling1D(pool_size = 1, strides = 3))
model.add((LSTM(32)))
model.add(Dense(units=num_classes,activation='softmax'))
model.summary()
opt = optimizers.SGD(lr = args.learning_rate, decay=args.decay, momentum=args.momentum, nesterov=True)
model.compile(optimizer=opt,loss='binary_crossentropy',metrics=['categorical_accuracy'])
Train model
history = model.fit(x_tr,y_tr,epochs=args.num_epochs,batch_size=args.batch_size,validation_data=(x_val,y_val))
Evaluate model
from matplotlib import pyplot as plt
loss_train = history.history['categorical_accuracy']
loss_val = history.history['val_categorical_accuracy']
epochs = range(1,len(loss_train)+1)
plt.plot(epochs, loss_train, 'g', label='Training Accuracy')
plt.plot(epochs, loss_val, 'b', label='validation Accuracy')
plt.title('Training and Validation Accuracy')
plt.xlabel('Epochs')
plt.ylabel('Loss')
plt.legend()
plt.show()
loss_train = history.history['loss']
loss_val = history.history['val_loss']
epochs = range(1,len(loss_train)+1)
plt.plot(epochs, loss_train, 'g', label='Training loss')
plt.plot(epochs, loss_val, 'b', label='validation loss')
plt.title('Training and Validation loss')
plt.xlabel('Epochs')
plt.ylabel('Loss')
plt.legend()
plt.show()
Predict & Evaluate model
ypred = model.predict(x_t)
ypred1 = [np.round(x) for x in ypred]
from sklearn.model_selection import train_test_split
import numpy as np
import pandas as pd
from sklearn.preprocessing import StandardScaler
from sklearn.datasets import load_iris
from sklearn.utils import extmath
from sklearn.svm import SVC
from sklearn.preprocessing import OneHotEncoder
from sklearn.metrics import roc_curve
from sklearn.metrics import roc_auc_score
from matplotlib import pyplot
from itertools import cycle
from sklearn.preprocessing import label_binarize
from sklearn.metrics import roc_curve, auc
ypred = ypred1
y_test = y_t
ypred1=pd.DataFrame(ypred1)
n_classes = ypred1.shape[1]
ypred1 = np.array(ypred1)
# Plotting and estimation of FPR,TPR
fpr = dict()
tpr = dict()
roc_auc = dict()
for i in range(n_classes):
fpr[i], tpr[i], _ = roc_curve(y_test[:, i], ypred1[:, i])
roc_auc[i] = auc(fpr[i], tpr[i])
colors = cycle(['blue', 'green', 'red','darkorange','olive','purple','navy'])
for i, color in zip(range(n_classes), colors):
pyplot.plot(fpr[i], tpr[i], color=color, lw=1.5, label='ROC curve of class {0}(area = {1:0.2f})' ''.format(i+1, roc_auc[i]))
pyplot.plot([0, 1], [0, 1], 'k--', lw=1.5)
pyplot.xlim([-0.05, 1.0])
pyplot.ylim([0.0, 1.05])
pyplot.xlabel('False Positive Rate',fontsize=12, fontweight='bold')
pyplot.ylabel('True Positive Rate',fontsize=12, fontweight='bold')
pyplot.tick_params(labelsize=12)
pyplot.legend(loc="lower right")
ax = pyplot.axes()
pyplot.show()
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