efficientunet_tissue_mask_model

tiatoolbox . models . architecture . efficientunet_tissue_mask_model

Tissue Mask Segmentation Model Architecture.

This module defines a tissue segmentation model based on an EfficientNet-UNet architecture for identifying tissue regions in digital pathology images. The model implements an EfficientNetB0 encoder with a UNet-style decoder and segmentation head for high-resolution tissue segmentation.

Key Components:

• Conv2dStaticSamePadding:

  Convolutional layer with static same padding.

• MBConvBlock:

  Mobile Inverted Residual Bottleneck block.

• EfficientNetEncoder:

  EfficientNetB0 encoder for feature extraction.

• Conv2dReLU:

  Convolutional block with BatchNorm and ReLU activation.

• UnetDecoderBlock:

  Decoder block with skip connections for feature fusion.

• UnetDecoder:

  Decoder with skip connections for UNet architecture.

• SegmentationHead:

  Final layer for segmentation output.

• EfficientUNetTissueMaskModel:

  Main model class implementing encoder-decoder architecture for tissue detection.

Features:

• ImageNet normalization during preprocessing.

• Morphological postprocessing for generating clean tissue masks.

• Efficient inference pipeline for batch processing.

Example

>>> from tiatoolbox.models.engine.semantic_segmentor import SemanticSegmentor
>>> segmentor = SemanticSegmentor(model="efficientunet-tissue_mask")
>>> results = segmentor.run(
...     ["/example_wsi.svs"],
...     masks=None,
...     auto_get_mask=False,
...     patch_mode=False,
...     save_dir=Path("/tissue_mask/"),
...     output_type="annotationstore",
... )

Classes

Conv2dReLU	Conv2d + BatchNorm + ReLU block.
Conv2dStaticSamePadding	2D Convolution with static same padding.
EfficientNetEncoder	EfficientNetB0 encoder for feature extraction.
EfficientUNetTissueMaskModel	EfficientNet-UNet Tissue Segmentation Model.
MBConvBlock	Mobile Inverted Residual Bottleneck block.
SegmentationHead	Segmentation head for UNet architecture.
UnetDecoder	UNet decoder with skip connections.
UnetDecoderBlock	Decoder block for UNet architecture.