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Behav classifier templates

behavysis_pipeline.behav_classifier.clf_templates

summary

CNN1

Bases: BaseTorchModel

x features is (samples, window, features). y outcome is (samples, class).

Source code in behavysis_pipeline/behav_classifier/clf_templates.py 
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class CNN1(BaseTorchModel):
    """
    x features is (samples, window, features).
    y outcome is (samples, class).
    """

    def __init__(self):
        # Initialising the parent class
        super().__init__(546, 10)
        # Define the layers
        self.conv1 = nn.Conv1d(self.nfeatures, 64, kernel_size=2)
        self.relu1 = nn.ReLU()
        # self.maxpool1 = nn.MaxPool1d(kernel_size=2)
        self.flatten = nn.Flatten()

        flat_size = self.window_frames * 2 + 1
        flat_size = flat_size - 1
        # flat_size = (flat_size - 2) // 2
        flat_size = flat_size * 64

        self.fc1 = nn.Linear(flat_size, 64)
        self.relu3 = nn.ReLU()
        self.dropout1 = nn.Dropout(0.5)
        self.fc2 = nn.Linear(64, 1)
        self.sigmoid1 = nn.Sigmoid()
        # Define the loss function and optimizer
        self.criterion: nn.Module = nn.BCELoss()
        self.optimizer: optim.Optimizer = optim.Adam(self.parameters())
        # Setting the device (GPU or CPU)
        self.device = self.device

    def forward(self, x):
        out = x
        out = self.conv1(out)
        out = self.relu1(out)
        # out = self.maxpool1(out)
        out = self.flatten(out)
        out = self.fc1(out)
        out = self.relu3(out)
        out = self.dropout1(out)
        out = self.fc2(out)
        out = self.sigmoid1(out)
        return out

CNN2

Bases: BaseTorchModel

x features is (samples, window, features). y outcome is (samples, class).

Source code in behavysis_pipeline/behav_classifier/clf_templates.py 
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class CNN2(BaseTorchModel):
    """
    x features is (samples, window, features).
    y outcome is (samples, class).
    """

    def __init__(self):
        # Initialising the parent class
        super().__init__(546, 10)
        # Define the layers
        self.conv1 = nn.Conv1d(self.nfeatures, 64, kernel_size=3)
        self.relu1 = nn.ReLU()
        self.maxpool1 = nn.MaxPool1d(kernel_size=2)
        self.conv2 = nn.Conv1d(64, 32, kernel_size=3)
        self.relu2 = nn.ReLU()
        self.maxpool2 = nn.MaxPool1d(kernel_size=2)
        self.flatten = nn.Flatten()

        flat_size = self.window_frames * 2 + 1
        flat_size = (flat_size - 2) // 2
        flat_size = (flat_size - 2) // 2
        flat_size = flat_size * 32

        self.fc1 = nn.Linear(flat_size, 64)
        self.relu3 = nn.ReLU()
        self.dropout1 = nn.Dropout(0.5)
        self.fc2 = nn.Linear(64, 1)
        self.sigmoid1 = nn.Sigmoid()
        # Define the loss function and optimizer
        self.criterion: nn.Module = nn.BCELoss()
        self.optimizer: optim.Optimizer = optim.Adam(self.parameters())
        # Setting the device (GPU or CPU)
        self.device = self.device

    def forward(self, x):
        out = x
        out = self.conv1(out)
        out = self.relu1(out)
        out = self.maxpool1(out)
        out = self.conv2(out)
        out = self.relu2(out)
        out = self.maxpool2(out)
        out = self.flatten(out)
        out = self.fc1(out)
        out = self.relu3(out)
        out = self.dropout1(out)
        out = self.fc2(out)
        out = self.sigmoid1(out)
        return out

DNN1

Bases: BaseTorchModel

x features is (samples, window, features). y outcome is (samples, class).

Source code in behavysis_pipeline/behav_classifier/clf_templates.py 
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class DNN1(BaseTorchModel):
    """
    x features is (samples, window, features).
    y outcome is (samples, class).
    """

    def __init__(self):
        # Initialising the parent class
        super().__init__(546, 0)
        # Input shape
        flat_size = self.window_frames * 2 + 1
        flat_size = flat_size * self.nfeatures
        # Define the layers
        self.flatten = nn.Flatten()
        self.fc1 = nn.Linear(flat_size, 64)
        self.relu1 = nn.ReLU()
        self.dropout1 = nn.Dropout(0.5)
        self.fc2 = nn.Linear(64, 1)
        self.sigmoid1 = nn.Sigmoid()
        # Define the loss function and optimizer
        self.criterion: nn.Module = nn.BCELoss()
        self.optimizer: optim.Optimizer = optim.Adam(self.parameters())
        # Setting the device (GPU or CPU)
        self.device = self.device

    def forward(self, x):
        out = x
        out = self.flatten(out)
        out = self.fc1(out)
        out = self.relu1(out)
        out = self.dropout1(out)
        out = self.fc2(out)
        out = self.sigmoid1(out)
        return out

DNN2

Bases: BaseTorchModel

x features is (samples, window, features). y outcome is (samples, class).

Source code in behavysis_pipeline/behav_classifier/clf_templates.py 
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class DNN2(BaseTorchModel):
    """
    x features is (samples, window, features).
    y outcome is (samples, class).
    """

    def __init__(self):
        # Initialising the parent class
        super().__init__(546, 0)
        # Input shape
        flat_size = self.window_frames * 2 + 1
        flat_size = flat_size * self.nfeatures
        # Define the layers
        self.flatten = nn.Flatten()
        self.fc1 = nn.Linear(flat_size, 32)
        self.relu1 = nn.ReLU()
        self.dropout1 = nn.Dropout(0.5)
        self.fc2 = nn.Linear(32, 1)
        self.sigmoid1 = nn.Sigmoid()
        # Define the loss function and optimizer
        self.criterion: nn.Module = nn.BCELoss()
        self.optimizer: optim.Optimizer = optim.Adam(self.parameters())
        # Setting the device (GPU or CPU)
        self.device = self.device

    def forward(self, x):
        out = x
        out = self.flatten(out)
        out = self.fc1(out)
        out = self.relu1(out)
        out = self.dropout1(out)
        out = self.fc2(out)
        out = self.sigmoid1(out)
        return out

DNN3

Bases: BaseTorchModel

x features is (samples, window, features). y outcome is (samples, class).

Source code in behavysis_pipeline/behav_classifier/clf_templates.py 
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class DNN3(BaseTorchModel):
    """
    x features is (samples, window, features).
    y outcome is (samples, class).
    """

    def __init__(self):
        # Initialising the parent class
        super().__init__(546, 0)
        # Input shape
        flat_size = self.window_frames * 2 + 1
        flat_size = flat_size * self.nfeatures
        # Define the layers
        self.flatten = nn.Flatten()
        self.fc1 = nn.Linear(flat_size, 256)
        self.relu1 = nn.ReLU()
        self.dropout1 = nn.Dropout(0.5)
        self.fc2 = nn.Linear(256, 64)
        self.relu2 = nn.ReLU()
        self.dropout2 = nn.Dropout(0.5)
        self.fc3 = nn.Linear(64, 1)
        self.sigmoid1 = nn.Sigmoid()
        # Define the loss function and optimizer
        self.criterion: nn.Module = nn.BCELoss()
        self.optimizer: optim.Optimizer = optim.Adam(self.parameters())
        # Setting the device (GPU or CPU)
        self.device = self.device

    def forward(self, x):
        out = x
        out = self.flatten(out)
        out = self.fc1(out)
        out = self.relu1(out)
        out = self.dropout1(out)
        out = self.fc2(out)
        out = self.relu2(out)
        out = self.dropout2(out)
        out = self.fc3(out)
        out = self.sigmoid1(out)
        return out

RF1

Bases: RandomForestClassifier

x features is (samples, features). y outcome is (samples, class).

Source code in behavysis_pipeline/behav_classifier/clf_templates.py 
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class RF1(RandomForestClassifier):
    """
    x features is (samples, features).
    y outcome is (samples, class).
    """

    def __init__(self):
        super().__init__(
            n_estimators=2000,
            max_depth=3,
            random_state=0,
            n_jobs=16,
            verbose=1,
        )

    def fit(self, x, y, *args, **kwargs):
        super().fit(x, y)
        return self

    def predict(self, x, *args, **kwargs):
        return super().predict_proba(x)[:, 1]