hierarchical UNI for whole slide image classification

[ISBI 2024] Accurate Subtyping of Lung Cancers by Modelling Class Dependencies

DU Intelligence Artificielle et Santé (CHU de Lille). Séminaire 4: Traitement de l'image.

This repository is dedicated to the segmentation of histological features in regenerated vascular tissues obtained from tissue-engineered vascular grafts (TEVGs) implanted in sheep.

stain augmentation method based on stainmix up using multiple known stain matrices.

Scripts used for the "Glycophorin C in carotid atherosclerotic plaque reflects intraplaque hemorrhage and pre-procedural neurological symptoms" paper.

A Nextflow wrapper for HistoQC

PyPathomics is an open-source software for gigapixel whole-slide image analysis.

SpatialVisVR is a VR platform tailored for advanced visualization and analysis of medical images in immuno-oncology. It allows real-time capture and comparison of mIF and mIHC images via mobile devices. Leveraging deep learning, it matches and displays similar images, supporting up to 100 protein channels.

An implementation of deep learning segmentation models in digital pathology field

tubular structure segmentation in histopathological images

An immunofluorescence-guided segmentation model in H&E images is enabled by tissue artifact correction by CycleGAN

Detection of Graft Rejection Following Lung Transplantation

Custom groovy scripts for QuaPath

A simple python program to organize a digital slide collection as an SQLite database

Whole Slide Image Stain Normalisation and Augmentation

[MICCAI'24 DEMI Workshop - Best Paper Award] Evaluating Histopathology Foundation Models for Few-shot Tissue Clustering: an Application to LC25000 Augmented Dataset Cleaning

CLI tool to run specimen-level inference on whole slide images

Install the GeoMxNGSPipeline_Linux_2.0.0.16 tool from Nanostring/illumina to docker container, and convert it to Singularity.