Popular GitHub Repositories for Histology

A Python toolkit for pathology image analysis algorithms.

Federated Learning for Computational Pathology - Medical Image Analysis

Code for the im4MEC model described in the paper 'Interpretable deep learning model to predict the molecular classification of endometrial cancer from haematoxylin and eosin-stained whole-slide images: a combined analysis of the PORTEC randomised trials and clinical cohorts'.

HistoSeg is an Encoder-Decoder DCNN which utilizes the novel Quick Attention Modules and Multi Loss function to generate segmentation masks from histopathological images with greater accuracy. This repo contains the code to Test and Train the HistoSeg

Graph + Image Bimodal Deep Learning for Histology Image Classification

Synthetic histology using GANs, for deep learning model explainability and trainee education.

ECCV-AIMIA 2022 paper: "Multi-Scale Attention-based Multiple Instance Learning for Classification of Multi-Gigapixel Histology Images"

Deep Learning for Kidney Histologic Primitives (U-Net implementation in PyTorch)

Deep-learning based classification pipeline for subtyping lung tumors from histology. Study design and codebase to analyze the impact of nucleus segmentation on subtyping.

MMIR: Multimodal Image Registration

Transfer learning & fine-tuning in Tensorflow for classification of textures in colorectal cancer histology

Pipeline for IDC classification from histology images using DVC and MLflow for versioning and tracking.