bioimage-informatics topic
qupath
QuPath - Bioimage analysis & digital pathology
HistomicsTK
A Python toolkit for pathology image analysis algorithms.
TOAD
AI-based pathology predicts origins for cancers of unknown primary - Nature
CLAM
Data-efficient and weakly supervised computational pathology on whole slide images - Nature Biomedical Engineering
digital_slide_archive
The official deployment of the Digital Slide Archive and HistomicsTK.
pi2
C++ library and command-line software for processing and analysis of terabyte-scale volume images locally or on a computing cluster.
SISH
Fast and scalable search of whole-slide images via self-supervised deep learning - Nature Biomedical Engineering
SIMPLI
SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.
CONCH
A vision-language foundation model for computational pathology - Nature Medicine