jnkather/histopathology-snippets

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jnkather/histopathology-snippets

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Code snippets for histopathology.

MSIfromHE

predict microsatellite status from hematoxylin-eosin histology of gastrointestinal cancer

DeepHistology

A pan-cancer platform for mutation prediction from routine histology

ColorDeconvolutionMatlab

A Matlab implementation of Ruifrok's color deconvolution algorithm.

deep-stroma-histology

Convolutional neural networks for extracting a "deep stroma score" from histological images of human cancer

histology-multiclass-texture

Texture analysis in colorectal cancer histology

immuno_literature

Cancer immunotherapy literature analysis (PubMed papers and registered clinical trials)

immunoABM

an agent-based model of tumor cell - immune cell interactions

histoGAN

Generative adversarial networks for histology images

new-colors-histology

Source codes for: "New colors for histology: optimized bivariate color maps increase perceptual contrast in histological images"

immuneTopography

Analyze topography of tumor-infiltrating immune cells in histological images (QuPath/Matlab)

new-colors-histology-website

This is the website for our project on bivariate colormaps in histopathology

immunoABM3D

3D agent-based model of human colorectal cancer