braindecode 1.3.0.dev177069446__py3-none-any.whl

braindecode/models/hybrid.py

@@ -0,0 +1,126 @@
+# Authors: Robin Schirrmeister <robintibor@gmail.com>
+#
+# License: BSD (3-clause)
+
+import torch
+from torch import nn
+from torch.nn import ConstantPad2d
+
+from braindecode.models.deep4 import Deep4Net
+from braindecode.models.shallow_fbcsp import ShallowFBCSPNet
+
+
+class HybridNet(nn.Module):
+    r"""Hybrid ConvNet model from Schirrmeister, R T et al (2017)  [Schirrmeister2017]_.
+
+    See [Schirrmeister2017]_ for details.
+
+    References
+    ----------
+    .. [Schirrmeister2017] Schirrmeister, R. T., Springenberg, J. T., Fiederer,
+       L. D. J., Glasstetter, M., Eggensperger, K., Tangermann, M., Hutter, F.
+       & Ball, T. (2017).
+       Deep learning with convolutional neural networks for EEG decoding and
+       visualization.
+       Human Brain Mapping , Aug. 2017.
+       Online: http://dx.doi.org/10.1002/hbm.23730
+    """
+
+    def __init__(
+        self,
+        n_chans=None,
+        n_outputs=None,
+        n_times=None,
+        input_window_seconds=None,
+        sfreq=None,
+        chs_info=None,
+        activation: type[nn.Module] = nn.ELU,
+        drop_prob: float = 0.5,
+    ):
+        super().__init__()
+        self.mapping = {
+            "final_conv.weight": "final_layer.weight",
+            "final_conv.bias": "final_layer.bias",
+        }
+
+        deep_model = Deep4Net(
+            n_chans=n_chans,
+            n_outputs=n_outputs,
+            n_filters_time=20,
+            n_filters_spat=30,
+            n_filters_2=40,
+            n_filters_3=50,
+            n_filters_4=60,
+            n_times=n_times,
+            input_window_seconds=input_window_seconds,
+            sfreq=sfreq,
+            chs_info=chs_info,
+            final_conv_length=2,
+            activation_first_conv_nonlin=activation,
+            activation_later_conv_nonlin=activation,
+            drop_prob=drop_prob,
+        )
+        shallow_model = ShallowFBCSPNet(
+            n_chans=n_chans,
+            n_outputs=n_outputs,
+            n_times=n_times,
+            input_window_seconds=input_window_seconds,
+            sfreq=sfreq,
+            chs_info=chs_info,
+            n_filters_time=30,
+            n_filters_spat=40,
+            filter_time_length=28,
+            final_conv_length=29,
+            drop_prob=drop_prob,
+        )
+        new_conv_layer = nn.Conv2d(
+            deep_model.final_layer.conv_classifier.in_channels,
+            60,
+            kernel_size=deep_model.final_layer.conv_classifier.kernel_size,
+            stride=deep_model.final_layer.conv_classifier.stride,
+        )
+        deep_model.final_layer = new_conv_layer
+
+        new_conv_layer = nn.Conv2d(
+            shallow_model.final_layer.conv_classifier.in_channels,
+            40,
+            kernel_size=shallow_model.final_layer.conv_classifier.kernel_size,
+            stride=shallow_model.final_layer.conv_classifier.stride,
+        )
+        shallow_model.final_layer = new_conv_layer
+
+        deep_model.to_dense_prediction_model()
+        shallow_model.to_dense_prediction_model()
+        self.reduced_deep_model = deep_model
+        self.reduced_shallow_model = shallow_model
+
+        self.final_layer = nn.Sequential(
+            nn.Conv2d(100, n_outputs, kernel_size=(1, 1), stride=1),
+            nn.Identity(),
+        )
+
+    def forward(self, x):
+        """Forward pass.
+
+        Parameters
+        ----------
+        x: torch.Tensor
+            Batch of EEG windows of shape (batch_size, n_channels, n_times).
+        """
+        deep_out = self.reduced_deep_model(x)
+        shallow_out = self.reduced_shallow_model(x)
+
+        n_diff_deep_shallow = deep_out.size()[2] - shallow_out.size()[2]
+
+        if n_diff_deep_shallow < 0:
+            deep_out = ConstantPad2d((0, 0, -n_diff_deep_shallow, 0), 0)(deep_out)
+        elif n_diff_deep_shallow > 0:
+            shallow_out = ConstantPad2d((0, 0, n_diff_deep_shallow, 0), 0)(shallow_out)
+
+        merged_out = torch.cat((deep_out, shallow_out), dim=1)
+
+        output = self.final_layer(merged_out)
+
+        squeezed = output.squeeze(3)
+
+        return squeezed

braindecode/models/ifnet.py

@@ -0,0 +1,443 @@
+"""IFNet Neural Network.
+
+Authors: Jiaheng Wang
+         Bruno Aristimunha <b.aristimunha@gmail.com> (braindecode adaptation)
+License: MIT (https://github.com/Jiaheng-Wang/IFNet/blob/main/LICENSE)
+
+J. Wang, L. Yao and Y. Wang, "IFNet: An Interactive Frequency Convolutional
+Neural Network for Enhancing Motor Imagery Decoding from EEG," in IEEE
+Transactions on Neural Systems and Rehabilitation Engineering,
+doi: 10.1109/TNSRE.2023.3257319.
+"""
+
+from __future__ import annotations
+
+from typing import Optional, Sequence
+
+import torch
+from einops.layers.torch import Rearrange
+from mne.utils import warn
+from torch import nn
+from torch.nn.init import trunc_normal_
+
+from braindecode.models.base import EEGModuleMixin
+from braindecode.modules import (
+    FilterBankLayer,
+    LinearWithConstraint,
+    LogPowerLayer,
+)
+
+
+class IFNet(EEGModuleMixin, nn.Module):
+    r"""IFNetV2 from Wang J et al (2023) [ifnet]_.
+
+    :bdg-success:`Convolution` :bdg-primary:`Filterbank`
+
+    .. figure:: https://raw.githubusercontent.com/Jiaheng-Wang/IFNet/main/IFNet.png
+        :align: center
+        :alt: IFNetV2 Architecture
+
+    Overview of the Interactive Frequency Convolutional Neural Network architecture.
+
+    IFNetV2 is designed to effectively capture spectro-spatial-temporal
+    features for motor imagery decoding from EEG data. The model consists of
+    three stages: Spectro-Spatial Feature Representation, Cross-Frequency
+    Interactions, and Classification.
+
+    - **Spectro-Spatial Feature Representation**: The raw EEG signals are
+      filtered into two characteristic frequency bands: low (4-16 Hz) and
+      high (16-40 Hz), covering the most relevant motor imagery bands.
+      Spectro-spatial features are then extracted through 1D point-wise
+      spatial convolution followed by temporal convolution.
+
+    - **Cross-Frequency Interactions**: The extracted spectro-spatial
+      features from each frequency band are combined through an element-wise
+      summation operation, which enhances feature representation while
+      preserving distinct characteristics.
+
+    - **Classification**: The aggregated spectro-spatial features are further
+      reduced through temporal average pooling and passed through a fully
+      connected layer followed by a softmax operation to generate output
+      probabilities for each class.
+
+    Notes
+    -----
+    This implementation is not guaranteed to be correct, has not been checked
+    by original authors, only reimplemented from the paper description and
+    Torch source code [ifnetv2code]_. Version 2 is present only in the repository,
+    and the main difference is one pooling layer, describe at the TABLE VII
+    from the paper: https://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&arnumber=10070810
+
+
+    Parameters
+    ----------
+    bands : list[tuple[int, int]] or int or None, default=[[4, 16], (16, 40)]
+        Frequency bands for filtering.
+    out_planes : int, default=64
+        Number of output feature dimensions.
+    kernel_sizes : tuple of int, default=(63, 31)
+        List of kernel sizes for temporal convolutions.
+    patch_size : int, default=125
+        Size of the patches for temporal segmentation.
+    drop_prob : float, default=0.5
+        Dropout probability.
+    activation : nn.Module, default=nn.GELU
+        Activation function after the InterFrequency Layer.
+    verbose : bool, default=False
+        Verbose to control the filtering layer
+    filter_parameters : dict, default={}
+        Additional parameters for the filter bank layer.
+
+    References
+    ----------
+    .. [ifnet] Wang, J., Yao, L., & Wang, Y. (2023). IFNet: An interactive
+        frequency convolutional neural network for enhancing motor imagery
+        decoding from EEG. IEEE Transactions on Neural Systems and
+        Rehabilitation Engineering, 31, 1900-1911.
+    .. [ifnetv2code] Wang, J., Yao, L., & Wang, Y. (2023). IFNet: An interactive
+        frequency convolutional neural network for enhancing motor imagery
+        decoding from EEG.
+        https://github.com/Jiaheng-Wang/IFNet
+    """
+
+    def __init__(
+        self,
+        # Braindecode parameters
+        n_chans=None,
+        n_outputs=None,
+        n_times=None,
+        chs_info=None,
+        input_window_seconds=None,
+        sfreq=None,
+        # Model-specific parameters
+        bands: list[tuple[float, float]] | int | None = [(4.0, 16.0), (16, 40)],
+        n_filters_spat: int = 64,
+        kernel_sizes: tuple[int, int] = (63, 31),
+        stride_factor: int = 8,
+        drop_prob: float = 0.5,
+        linear_max_norm: float = 0.5,
+        activation: type[nn.Module] = nn.GELU,
+        verbose: bool = False,
+        filter_parameters: Optional[dict] = None,
+    ):
+        super().__init__(
+            n_chans=n_chans,
+            n_outputs=n_outputs,
+            chs_info=chs_info,
+            n_times=n_times,
+            input_window_seconds=input_window_seconds,
+            sfreq=sfreq,
+        )
+        del n_outputs, n_chans, chs_info, n_times, input_window_seconds, sfreq
+
+        self.bands = bands
+        self.n_filters_spat = n_filters_spat
+        self.stride_factor = stride_factor
+        self.kernel_sizes = kernel_sizes
+        self.verbose = verbose
+        self.filter_parameters = filter_parameters
+        self.drop_prob = drop_prob
+        self.activation = activation
+        self.linear_max_norm = linear_max_norm
+        self.filter_parameters = filter_parameters or {}
+
+        # Layers
+        # Following paper nomenclature
+        self.spectral_filtering = FilterBankLayer(
+            n_chans=self.n_chans,
+            sfreq=self.sfreq,
+            band_filters=self.bands,
+            verbose=verbose,
+            **self.filter_parameters,
+        )
+        # As we have an internal process to create the bands,
+        # we get the values from the filterbank
+        self.n_bands = self.spectral_filtering.n_bands
+
+        # My interpretation from the TABLE VII IFNet Architecture from the
+        # paper.
+        self.ensuredim = Rearrange(
+            "batch nbands chans time -> batch (nbands chans) time"
+        )
+
+        # SpatioTemporal Feature Block
+        self.feature_block = _SpatioTemporalFeatureBlock(
+            in_channels=self.n_chans * self.n_bands,
+            out_channels=self.n_filters_spat,
+            kernel_sizes=self.kernel_sizes,
+            stride_factor=self.stride_factor,
+            n_bands=self.n_bands,
+            drop_prob=self.drop_prob,
+            activation=self.activation,
+            n_times=self.n_times,
+        )
+
+        # Final classification layer
+        self.final_layer = LinearWithConstraint(
+            in_features=self.n_filters_spat * stride_factor,
+            out_features=self.n_outputs,
+            max_norm=self.linear_max_norm,
+        )
+
+        self.flatten = Rearrange("batch ... -> batch (...)")
+
+        # Initialize parameters
+        self._initialize_weights(self)
+
+    @staticmethod
+    def _initialize_weights(m):
+        """Initializes weights of the network.
+
+        Parameters
+        ----------
+        m : nn.Module
+            Module to initialize.
+        """
+        if isinstance(m, nn.Linear):
+            trunc_normal_(m.weight, std=0.01)
+            if m.bias is not None:
+                nn.init.constant_(m.bias, 0)
+        elif isinstance(m, (nn.LayerNorm, nn.BatchNorm1d, nn.BatchNorm2d)):
+            if m.weight is not None:
+                nn.init.constant_(m.weight, 1.0)
+            if m.bias is not None:
+                nn.init.constant_(m.bias, 0)
+        elif isinstance(m, (nn.Conv1d, nn.Conv2d)):
+            trunc_normal_(m.weight, std=0.01)
+            if m.bias is not None:
+                nn.init.constant_(m.bias, 0)
+
+    def forward(self, x: torch.Tensor) -> torch.Tensor:
+        """Forward pass of IFNet.
+
+        Parameters
+        ----------
+        x : torch.Tensor
+            Input tensor with shape (batch_size, n_chans, n_times).
+
+        Returns
+        -------
+        torch.Tensor
+            Output tensor with shape (batch_size, n_outputs).
+        """
+        # Pass through the spectral filtering layer
+        x = self.spectral_filtering(x)
+        # x is now of shape (batch_size, n_bands, n_chans, n_times)
+        x = self.ensuredim(x)
+        # x is now of shape (batch_size, n_bands * n_chans, n_times)
+
+        # Pass through the feature block
+        x = self.feature_block(x)
+
+        # Flatten and pass through the final layer
+        x = self.flatten(x)
+
+        x = self.final_layer(x)
+
+        return x
+
+
+class _InterFrequencyModule(nn.Module):
+    r"""Module that combines outputs from different frequency bands."""
+
+    def __init__(self, activation: type[nn.Module] = nn.GELU):
+        """
+
+        Parameters
+        ----------
+        activation: nn.Module
+            Activation function for the InterFrequency Module
+
+        """
+        super().__init__()
+
+        self.activation = activation()
+
+    def forward(self, x_list: list[torch.Tensor]) -> torch.Tensor:
+        """Forward pass.
+
+        Parameters
+        ----------
+        x_list : list of torch.Tensor
+            List of tensors to be combined.
+
+        Returns
+        -------
+        torch.Tensor
+            Combined tensor after applying GELU activation.
+        """
+        x = torch.stack(x_list, dim=0).sum(dim=0)
+        x = self.activation(x)
+        return x
+
+
+class _SpatioTemporalFeatureBlock(nn.Module):
+    r"""SpatioTemporal Feature Block consisting of spatial and temporal convolutions."""
+
+    def __init__(
+        self,
+        n_times: int,
+        in_channels: int,
+        out_channels: int = 64,
+        kernel_sizes: Sequence[int] = [63, 31],
+        stride_factor: int = 8,
+        n_bands: int = 2,
+        drop_prob: float = 0.5,
+        activation: type[nn.Module] = nn.GELU,
+        dim: int = 3,
+    ):
+        """
+        Parameters
+        ----------
+        in_channels : int
+            Number of input channels.
+        out_channels : int, default=64
+            Number of output channels.
+        kernel_sizes : list of int, default=[63, 31]
+            List of kernel sizes for temporal convolutions.
+        stride_factor : int, default=4
+            Stride factor for temporal segmentation.
+        n_bands : int, default=2
+            Number of frequency bands or groups.
+        drop_prob : float, default=0.5
+            Dropout probability.
+        activation: nn.Module, default=nn.GELU
+            Activation function after the InterFrequency Layer
+        dim: int, default=3
+            Internal dimensional to apply the LogPowerLayer
+        """
+        super().__init__()
+        self.in_channels = in_channels
+        self.out_channels = out_channels
+        self.n_bands = n_bands
+        self.stride_factor = stride_factor
+        self.drop_prob = drop_prob
+        self.activation = activation
+        self.dim = dim
+        self.n_times = n_times
+        self.kernel_sizes = kernel_sizes
+
+        if self.n_bands != len(self.kernel_sizes):
+            warn(
+                f"Got {self.n_bands} bands, different from {len(self.kernel_sizes)} amount of "
+                "kernels to build the temporal convolution, we will apply "
+                "min(n_bands, len(self.kernel_size) to apply the convolution.",
+                UserWarning,
+            )
+            if self.n_bands > len(self.kernel_sizes):
+                self.n_bands = len(self.kernel_sizes)
+                warn(
+                    f"Reducing number of bands to {len(self.kernel_sizes)} to match the number of kernels.",
+                    UserWarning,
+                )
+            elif self.n_bands < len(self.kernel_sizes):
+                self.kernel_sizes = self.kernel_sizes[: self.n_bands]
+                warn(
+                    f"Reducing number of kernels to {self.n_bands} to match the number of bands.",
+                    UserWarning,
+                )
+
+        if self.n_times % self.stride_factor != 0:
+            warn(
+                f"Time dimension ({self.n_times}) is not divisible by"
+                f" stride_factor ({self.stride_factor}). Input will be padded.",
+                UserWarning,
+            )
+
+        out_channels_spatial = self.out_channels * self.n_bands
+
+        # Spatial convolution
+        self.spatial_conv = nn.Conv1d(
+            in_channels=self.in_channels,
+            out_channels=out_channels_spatial,
+            kernel_size=1,
+            groups=self.n_bands,
+            bias=False,
+        )
+        self.spatial_bn = nn.BatchNorm1d(out_channels_spatial)
+
+        self.unpack_bands = nn.Unflatten(
+            dim=1, unflattened_size=(self.n_bands, self.out_channels)
+        )
+
+        # Temporal convolutions for each radix
+        self.temporal_convs = nn.ModuleList()
+        for kernel_size in self.kernel_sizes:
+            self.temporal_convs.append(
+                nn.Sequential(
+                    nn.Conv1d(
+                        in_channels=self.out_channels,
+                        out_channels=self.out_channels,
+                        kernel_size=kernel_size,
+                        padding=kernel_size // 2,
+                        groups=self.out_channels,
+                        bias=False,
+                    ),
+                    nn.BatchNorm1d(self.out_channels),
+                )
+            )
+        # Inter-frequency module
+        self.inter_frequency = _InterFrequencyModule(activation=self.activation)
+
+        if self.n_times % self.stride_factor != 0:
+            self.padding_size = stride_factor - (self.n_times % stride_factor)
+            self.n_times_padded = self.n_times + self.padding_size
+            self.padding_layer = nn.ConstantPad1d((0, self.padding_size), 0.0)
+        else:
+            self.padding_layer = nn.Identity()
+            self.n_times_padded = self.n_times
+
+        # Log-Power layer
+        self.log_power = LogPowerLayer(dim=self.dim)  # type: ignore
+        # Dropout
+        self.dropout_layer = nn.Dropout(self.drop_prob)
+
+    def forward(self, x: torch.Tensor) -> torch.Tensor:
+        """Forward pass.
+
+        Parameters
+        ----------
+        x : torch.Tensor
+            Input tensor of shape (batch_size, in_channels, n_times).
+
+        Returns
+        -------
+        torch.Tensor
+            Output tensor after processing.
+        """
+        batch_size, _, _ = x.shape
+
+        # Spatial convolution
+        x = self.spatial_conv(x)
+
+        x = self.spatial_bn(x)
+
+        # Split the output by bands for each frequency
+        x_split = self.unpack_bands(x)
+
+        x_t = []
+        for idx, conv in enumerate(self.temporal_convs):
+            x_t.append(conv(x_split[::, idx]))
+
+        # Inter-frequency interaction
+        x = self.inter_frequency(x_t)
+
+        # Reshape for temporal segmentation
+        x = self.padding_layer(x)
+        # x is now of shape (batch_size, ..., n_times_padded)
+
+        # Reshape for log-power computation
+        x = x.view(
+            batch_size,
+            self.out_channels,
+            self.stride_factor,
+            self.n_times_padded // self.stride_factor,
+        )
+
+        # Log-Power layer
+        x = self.log_power(x)
+
+        # Dropout
+        x = self.dropout_layer(x)
+
+        return x