histology

QuPath - Open-source bioimage analysis for research

Toolkit for large-scale whole-slide image processing.

A Python toolkit for pathology image analysis algorithms.

Histology Spatial Topology for Omics Profiling and Inter-section Alignment

Integrating histology and spatial transcriptomics - NeurIPS 2024

Powerful, open-source AI tools for digital pathology.

Pan-Cancer Integrative Histology-Genomic Analysis via Multimodal Deep Learning - Cancer Cell

Two-Stage Convolutional Neural Network for Breast Cancer Histology Image Classification. ICIAR 2018 Grand Challenge on BreAst Cancer Histology images (BACH)

AI-based pathology predicts origins for cancers of unknown primary - Nature

Feather - Lightweight supervised slide foundation models (ICML 2025)

Morphological Prototyping for Unsupervised Slide Representation Learning in Computational Pathology - CVPR 2024

The official deployment of the Digital Slide Archive and HistomicsTK.

A python package which aligns histology to the Allen Brain Atlas and Waxholm rat atlas using deep learning.

Axon/Myelin segmentation using Deep Learning

Fast and scalable search of whole-slide images via self-supervised deep learning - Nature Biomedical Engineering

Open Scripts and pipelines from the Multimodal Imaging and Connectome Analysis Lab at the Montreal Neurological Institute

A Girder plugin for pathology image annotations and analysis.

A pipeline to segment tissue from the background in histological images

Spatial omics in the browser for hundreds of images at once | 10x, IMC, IF, H&E, CosMX, & more | https://rakaia.io/

RandStainNA: Simple and efficient augmentations for histology [MICCAI 2022]