Data-efficient and weakly supervised computational pathology on whole slide images - Nature Biomedical Engineering

Tools for computational pathology

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

Library for Digital Pathology Image Processing

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

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

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

Full package for applying deep learning to virtual slides.

Attention-Challenging Multiple Instance Learning for Whole Slide Image Classification (ECCV2024)

Official code for "Self-Supervised driven Consistency Training for Annotation Efficient Histopathology Image Analysis" Published in Medical Image Analysis (MedIA) Journal, Oct, 2021.

Tools for whole slide image (WSI) processing. Especially for (pairwise) patch extraction, annotation parsing and data preparation for deep learning purposes.

Official PyTorch and MATLAB implementations of our MICCAI 2020 paper "FocusLiteNN: High Efficiency Focus Quality Assessment for Digital Pathology"

Python package for reading DICOM WSI file sets.

adaptive color deconvolution for paper "Zheng et al., CMPB, 2019"

Pytorch-adaptation of GPU-accelerated StainTool's stain normalization algorithms