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README.md
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license: apache-2.0
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#
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## Overview
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The **
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It is architected to run efficiently on resource constrained systems, providing tissue segmentation on a slide in under 1 second on a typical CPU.
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The model is trained on a manually curated set of slides from [our linked dataset](https://huggingface.co/datasets/conflux-xyz/tcga-tissue-segmentation), where it achieves 0.93 mIoU for tissue on the test split.
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## Usage
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**
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Thus, it is important when running inference with the model to run it on 40 MPP thumbnails and run inference on tiles of the same dimension (512 x 512).
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When padding tiles, pad with pure white: `rgb(255, 255, 255)`.
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- pathology
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license: apache-2.0
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# CxTissueSeg
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## Overview
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The **CxTissueSeg** model performs binary segmentation of patches of tissue present in [H&E](https://en.wikipedia.org/wiki/H%26E_stain) pathology slides.
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It is architected to run efficiently on resource constrained systems, providing tissue segmentation on a slide in under 1 second on a typical CPU.
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The model is trained on a manually curated set of slides from [our linked dataset](https://huggingface.co/datasets/conflux-xyz/tcga-tissue-segmentation), where it achieves 0.93 mIoU for tissue on the test split.
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## Usage
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**CxTissueSeg** was trained on 512 x 512 pixel patches from thumbnail images of whole slides at 40 microns per pixel (MPP) -- a 4x downsample from the images in the dataset.
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Thus, it is important when running inference with the model to run it on 40 MPP thumbnails and run inference on tiles of the same dimension (512 x 512).
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When padding tiles, pad with pure white: `rgb(255, 255, 255)`.
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