computational-pathology
There are 74 repositories under computational-pathology topic.
qupath/qupath
QuPath - Bioimage analysis & digital pathology
mahmoodlab/CLAM
Data-efficient and weakly supervised computational pathology on whole slide images - Nature Biomedical Engineering
mahmoodlab/HIPT
Hierarchical Image Pyramid Transformer - CVPR 2022 (Oral)
Dana-Farber-AIOS/pathml
Tools for computational pathology
TissueImageAnalytics/tiatoolbox
Computational Pathology Toolbox developed by TIA Centre, University of Warwick.
Peter554/StainTools
Tools for tissue image stain normalisation and augmentation in Python 3
jamesdolezal/slideflow
Deep learning library for digital pathology, with both Tensorflow and PyTorch support.
mahmoodlab/UNI
Towards a general-purpose foundation model for computational pathology - Nature Medicine
mahmoodlab/CONCH
A vision-language foundation model for computational pathology - Nature Medicine
owkin/HistoSSLscaling
Code associated to the publication: Scaling self-supervised learning for histopathology with masked image modeling, A. Filiot et al., MedRxiv (2023). We publicly release Phikon 🚀
Richarizardd/Self-Supervised-ViT-Path
Self-Supervised Vision Transformers Learn Visual Concepts in Histopathology (LMRL Workshop, NeurIPS 2021)
AICAN-Research/FAST-Pathology
⚡ Open-source software for deep learning-based digital pathology
MarvinLer/tcga_segmentation
Whole Slide Image segmentation with weakly supervised multiple instance learning on TCGA | MICCAI2020 https://arxiv.org/abs/2004.05024
EIDOSLAB/torchstain
Stain normalization tools for histological analysis and computational pathology
lyndonchan/hsn_v1
HistoSegNet: Semantic Segmentation of Histological Tissue Type in Whole Slide Images (ICCV 2019)
DIAGNijmegen/pathology-whole-slide-data
A package for working with whole-slide data including a fast batch iterator that can be used to train deep learning models.
mahmoodlab/MI-Zero
Visual Language Pretrained Multiple Instance Zero-Shot Transfer for Histopathology Images - CVPR 2023
cytomine/Cytomine-core
Cytomine-Core is the main web server implementing the Cytomine API
TissueImageAnalytics/cerberus
One Model is All You Need: Multi-Task Learning Enables Simultaneous Histology Image Segmentation and Classification
jgamper/compay-syntax
:microscope: Syntax - the arrangement of whole-slide-images and their image tiles to create well-formed computational pathology pipelines.
manuel-munoz-aguirre/PyHIST
A pipeline to segment tissue from the background in histological images
sebastianffx/stainlib
Python 3 library for the augmentation & normalization of H&E images
bianhao123/Mixed_supervision
MICCAI2022: Multiple Instance Learning with Mixed Supervision in Gleason Grading.
PingjunChen/pyslide
Digital Pathology Whole Slide Image Analysis Toolbox
PingjunChen/tissueloc
Whole Slide Digital Pathology Image Tissue Localization
nauyan/Segmentation
Contains code for Semantic Segmentation of MoNuSeg 2018 challenge.
dazhangyu123/ACMIL
WSI classification
PingjunChen/LiverCancerSeg
PAIP2019: Liver Cancer Segmentation
mahdihosseini/ADP
Atlas of Digital Pathology for Deep Learning [CVPR2019]
rikiyay/style-transfer-for-digital-pathology
Learning domain-agnostic visual representation for computational pathology using medically-irrelevant style transfer augmentation
jamesdolezal/biscuit
Bayesian Inference of Slide-level Confidence via Uncertainty Index Thresholding
AICAN-Research/H2G-Net
🚀 H2G-Net: Segmentation of breast cancer region from whole slide images
andreped/fast-stain-normalization
:star2: GPU-accelerated stain normalization command line tool
lunit-io/ocelot23algo
OCELOT 2023: Cell Detection from Cell-Tissue Interaction
TissueImageAnalytics/iguana
Interpretable Gland-Graph Networks
PathologyDataScience/HiPS
Histomic Prognostic Signature (HiPS): A population-level computational histologic signature for invasive breast cancer prognosis