Learned Image Compression for HE-stained Histopathological Images via Stain Deconvolution
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arXiv
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| Main Authors: | , , , , , , , , , , , |
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| Format: | Preprint |
| Published: |
2024
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| _version_ | 1866911924206174208 |
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| author | Fischer, Maximilian Neher, Peter Wald, Tassilo Almeida, Silvia Dias Xiao, Shuhan Schüffler, Peter Braren, Rickmer Götz, Michael Muckenhuber, Alexander Kleesiek, Jens Nolden, Marco Maier-Hein, Klaus |
| author_facet | Fischer, Maximilian Neher, Peter Wald, Tassilo Almeida, Silvia Dias Xiao, Shuhan Schüffler, Peter Braren, Rickmer Götz, Michael Muckenhuber, Alexander Kleesiek, Jens Nolden, Marco Maier-Hein, Klaus |
| contents | Processing histopathological Whole Slide Images (WSI) leads to massive storage requirements for clinics worldwide. Even after lossy image compression during image acquisition, additional lossy compression is frequently possible without substantially affecting the performance of deep learning-based (DL) downstream tasks. In this paper, we show that the commonly used JPEG algorithm is not best suited for further compression and we propose Stain Quantized Latent Compression (SQLC ), a novel DL based histopathology data compression approach. SQLC compresses staining and RGB channels before passing it through a compression autoencoder (CAE ) in order to obtain quantized latent representations for maximizing the compression. We show that our approach yields superior performance in a classification downstream task, compared to traditional approaches like JPEG, while image quality metrics like the Multi-Scale Structural Similarity Index (MS-SSIM) is largely preserved. Our method is online available. |
| format | Preprint |
| id |
arxiv_https___arxiv_org_abs_2406_12623 |
| institution | arXiv |
| publishDate | 2024 |
| record_format | arxiv |
| spellingShingle | Learned Image Compression for HE-stained Histopathological Images via Stain Deconvolution Fischer, Maximilian Neher, Peter Wald, Tassilo Almeida, Silvia Dias Xiao, Shuhan Schüffler, Peter Braren, Rickmer Götz, Michael Muckenhuber, Alexander Kleesiek, Jens Nolden, Marco Maier-Hein, Klaus Image and Video Processing Computer Vision and Pattern Recognition Processing histopathological Whole Slide Images (WSI) leads to massive storage requirements for clinics worldwide. Even after lossy image compression during image acquisition, additional lossy compression is frequently possible without substantially affecting the performance of deep learning-based (DL) downstream tasks. In this paper, we show that the commonly used JPEG algorithm is not best suited for further compression and we propose Stain Quantized Latent Compression (SQLC ), a novel DL based histopathology data compression approach. SQLC compresses staining and RGB channels before passing it through a compression autoencoder (CAE ) in order to obtain quantized latent representations for maximizing the compression. We show that our approach yields superior performance in a classification downstream task, compared to traditional approaches like JPEG, while image quality metrics like the Multi-Scale Structural Similarity Index (MS-SSIM) is largely preserved. Our method is online available. |
| title | Learned Image Compression for HE-stained Histopathological Images via Stain Deconvolution |
| topic | Image and Video Processing Computer Vision and Pattern Recognition |
| url | https://arxiv.org/abs/2406.12623 |