Open source tools for computational pathology - Nature BME

QuPath - Open-source bioimage analysis for research

A framework for high-performance medical image processing, neural network inference and visualization

Tools for computational pathology

Computational Pathology Toolbox developed by TIA Centre, University of Warwick.

Library for Digital Pathology Image Processing

cuCIM - RAPIDS GPU-accelerated image processing library

Towards a general-purpose foundation model for computational pathology - Nature Medicine

A vision-language foundation model for computational pathology - Nature Medicine

Digital pathology image viewer with support for human/machine generated annotations and markups.

Deep Learning Inferred Multiplex ImmunoFluorescence for IHC Image Quantification (https://deepliif.org) [Nature Machine Intelligence'22, CVPR'22, MICCAI'23, Histopathology'23, MICCAI'24]

Interoperable web-based slide microscopy viewer and annotation tool

⚡ Open-source software for deep learning-based digital pathology

Stain normalization tools for histological analysis and computational pathology

PAthological QUpath Obsession - QuPath and Python conversations

Corresponding code of 'Quiros A.C., Murray-Smith R., Yuan K. Pathology GAN: Learning deep representations of cancer tissue. Proceedings of The 3rd International Conference on Medical Imaging with Deep Learning (MIDL) 2020'

Visual Language Pretrained Multiple Instance Zero-Shot Transfer for Histopathology Images - CVPR 2023

TiffSlide - cloud native openslide-python replacement based on tifffile

Encoder-Decoder Cell and Nuclei segmentation models

A Python module that produces image patches and annotation masks from whole slide images for deep learning in digital pathology.