histology

Two-Stage Convolutional Neural Network for Breast Cancer Histology Image Classification. ICIAR 2018 Grand Challenge on BreAst Cancer Histology images (BACH)

deep-learning pytorch medical-imaging classification image-classification histology breast-cancer

UpdatedOct 23, 2019
Python

mahmoodlab /PORPOISE

Star201

Pan-Cancer Integrative Histology-Genomic Analysis via Multimodal Deep Learning - Cancer Cell

genomics histology pan-cancer-analysis wsi-images mahmoodlab

UpdatedFeb 7, 2023
Jupyter Notebook

mahmoodlab /TOAD

Star172

AI-based pathology predicts origins for cancers of unknown primary - Nature

deep-learning cup deep cancer-imaging-research cancer-research histology bioimage-informatics pathology cancer-detection bioimage-analysis toad histopathology wsi-images mahmoodlab unknown-primary

UpdatedNov 1, 2021
Python

mahmoodlab /PANTHER

Star119

Morphological Prototyping for Unsupervised Slide Representation Learning in Computational Pathology - CVPR 2024

mixture-model optimal-transport histology pathology panther protoype

UpdatedFeb 22, 2025
Jupyter Notebook

axondeepseg /axondeepseg

Star118

Axon/Myelin segmentation using Deep Learning

machine-learning deep-learning segmentation convolutional-neural-networks electron-microscopy axon microscopy myelin spinalcord histology neuropoly

UpdatedMar 20, 2025
Python

DigitalSlideArchive /digital_slide_archive

Star117

The official deployment of the Digital Slide Archive and HistomicsTK.

hacktoberfest histology bioimage-informatics digital-slide-archive histomicstk

UpdatedMar 21, 2025
Python

mahmoodlab /SISH

Star100

Fast and scalable search of whole-slide images via self-supervised deep learning - Nature Biomedical Engineering

fish deep-learning image-retrieval histology bioimage-informatics pathology bioimage-analysis image-search-engine histopathology vqvae wsi-images mahmoodlab

UpdatedJun 9, 2023
Python

PolarBean /DeepSlice

Star91

A python package which aligns histology to the Allen Brain Atlas and Waxholm rat atlas using deep learning.

python machine-learning automation deep-learning neuroscience brain-imaging brainmaps brainmap histology histological-images

UpdatedMar 12, 2025
Python

MICA-MNI /micaopen

Star74

Open Scripts and pipelines from the Multimodal Imaging and Connectome Analysis Lab at the Montreal Neurological Institute

machine-learning neuroscience neuroimaging networks gradients connectomics histology multimodal multi-scale

UpdatedFeb 8, 2025
Jupyter Notebook

manuel-munoz-aguirre /PyHIST

Star68

A pipeline to segment tissue from the background in histological images

segmentation image-segmentation histology svs wsi computational-pathology histological-images histopathology

UpdatedApr 2, 2023
Python

DigitalSlideArchive /HistomicsUI

Star67

A Girder plugin for pathology image annotations and analysis.

python histology digital-slide-archive bioimage-infomatics

UpdatedMar 19, 2025
JavaScript

yiqings /RandStainNA

Star53

RandStainNA: Simple and efficient augmentations for histology [MICCAI 2022]

data-augmentation histology stain-normalization miccai-2022 stain-augmentation

UpdatedJan 11, 2023
Python

Code for the im4MEC model described in the paper 'Interpretable deep learning model to predict the molecular classification of endometrial cancer from haematoxylin and eosin-stained whole-slide images: a combined analysis of the PORTEC randomised trials and clinical cohorts'.

deep-neural-networks ai deep-learning pytorch deeplearning attention-mechanism histology pathology self-supervised-learning