Search Results - RepositoryStats

366

1.1k

gpl-3.0

21

Open source tools for computational pathology - Nature BME

clam pathology tcga-data camelyon16 camelyon17 mahmoodlab deep-learning data-efficient histopathology digital-pathology whole-slide-imaging bioimage-informatics quantitative-pathology computational-pathology weakly-supervised-learning

Created 2020-04-01

119 commits to master branch, last one 7 months ago

HIPT mahmoodlab

90

514

other

11

Hierarchical Image Pyramid Transformer - CVPR 2022 (Oral)

cvpr pytorch cvpr2022 deep-learning histopathology high-resolution transfer-learning pretrained-weights vision-transformer unsupervised-learning computational-pathology self-supervised-learning weakly-supervised-learning hierarchical-attention-networks

Created 2022-06-06

89 commits to master branch, last one 8 months ago

pathml Dana-Farber-AIOS

85

394

gpl-2.0

13

Tools for computational pathology

pathml python pytorch research pathology microscopy deep-learning histopathology image-analysis machine-learning digital-pathology computational-pathology spatial-transcriptomics biomedical-image-processing fluorescence-microscopy-imaging

Created 2019-07-31

1,384 commits to master branch, last one 26 days ago

tiatoolbox TissueImageAnalytics

82

389

other

7

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

python deep-learning histopathology image-analysis tissue-analysis machine-learning cell-segmentation digital-pathology cell-classification stain-normalization tissue-segmentation whole-slide-imaging medical-image-analysis computational-pathology

Created 2020-05-28

699 commits to develop branch, last one 9 hours ago

dsmil-wsi binli123

88

378

mit

0

DSMIL: Dual-stream multiple instance learning networks for tumor detection in Whole Slide Image

pytorch transformer deep-learning histopathology self-attention tumor-detection visiontransformer whole-slide-image whole-slide-imaging deep-neural-networks self-supervised-learning semi-supervised-learning multiple-instance-learning weakly-supervised-learning

Created 2020-11-05

131 commits to master branch, last one 8 months ago

UNI mahmoodlab

49

355

other

7

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

uni mass-100k pathology foundation mahmoodlab pathology-fm histopathology nature-medicine foundation-model pathology-dinov2 digital-pathology pathology-foundation uni-foundation-model quantitative-pathology computational-pathology pathology-self-supervised pathology-foundation-model

Created 2024-02-02

27 commits to main branch, last one 2 months ago

Histopathology-Datasets maduc7

46

283

unknown

8

Ressources of histopathology datasets

datasets ressources awesome-list histopathology histology-images machine-learning histopathology-images

Created 2022-07-22

89 commits to main branch, last one 15 days ago

CONCH mahmoodlab

22

281

other

3

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

conch pathology mahmoodlab histopathology medical-imaging nature-medicine foundation-model bioimage-analysis digital-pathology health-informatics bioimage-informatics nlp-machine-learning quantitative-pathology computational-pathology vision-language-pathology

Created 2023-12-31

14 commits to main branch, last one 3 months ago

PathomicFusion mahmoodlab

82

279

gpl-3.0

14

Fusing Histology and Genomics via Deep Learning - IEEE TMI

fusion genomics pathomic pathology mahmoodlab multimodal histopathology transcriptomics multimodal-network computational-pathogenomics

Created 2019-12-14

46 commits to master branch, last one 2 years ago

slideflow slideflow

45

269

apache-2.0

15

Powerful, open-source AI tools for digital pathology.

python histology pathology deep-learning histopathology machine-learning whole-slide-imaging computational-pathology

Created 2019-09-13

3,101 commits to master branch, last one 20 days ago

NucleiSegmentation mahmoodlab

62

185

unknown

12

cGAN-based Multi Organ Nuclei Segmentation

gan cgan nuclei pathology segmentation histopathology

Created 2018-09-13

26 commits to master branch, last one 2 years ago

TOAD mahmoodlab

48

170

agpl-3.0

5

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

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

Created 2020-06-19

26 commits to master branch, last one 3 years ago

Self-Supervised-ViT-Path Richarizardd

18

139

gpl-3.0

5

Self-Supervised Vision Transformers Learn Visual Concepts in Histopathology (LMRL Workshop, NeurIPS 2021)

neurips pytorch deep-learning histopathology transfer-learning pretrained-weights vision-transformer unsupervised-learning computational-pathology self-supervised-learning weakly-supervised-learning

Created 2022-03-03

77 commits to master branch, last one 2 years ago

quilt1m wisdomikezogwo

8

138

mit

5

[NeurIPS 2023 Oral] Quilt-1M: One Million Image-Text Pairs for Histopathology.

vlm clip-model histopathology medical-dataset multimodal-datasets

Created 2023-06-07

9 commits to main branch, last one 10 months ago

Patch-GCN mahmoodlab

29

129

gpl-3.0

5

Context-Aware Survival Prediction using Patch-based Graph Convolutional Networks - MICCAI 2021

gcn wsi pathology mahmoodlab wsi-images histopathology survival-prediction

Created 2021-05-21

37 commits to master branch, last one 10 months ago

tcga_segmentation MarvinLer

34

127

agpl-3.0

2

Whole Slide Image segmentation with weakly supervised multiple instance learning on TCGA | MICCAI2020 https://arxiv.org/abs/2004.05024

wsi tcga miccai pathology tcga-data segmentation data-efficient histopathology medical-imaging image-segmentation tumor-segmentation whole-slide-imaging computational-pathology slide-image-segmentation multiple-instance-learning weakly-supervised-learning

Created 2020-04-07

36 commits to master branch, last one 3 years ago

torchstain EIDOSLAB

21

118

mit

5

Stain normalization tools for histological analysis and computational pathology

numpy python pytorch tensorflow histopathology medical-imaging digital-pathology stain-normalization computational-pathology

Created 2020-12-22

188 commits to main branch, last one about a year ago

DGR-MIL ChongQingNoSubway

4

113

mit

3

Code for paper: DGR-MIL: Exploring Diverse Global Representation in Multiple Instance Learning for Whole Slide Image Classification [ECCV 2024]

transformer histopathology self-attention tumor-detection tumor-heterogeneity whole-slide-imaging tumor-classification multiple-instance-learning weakly-supervised-learning histopathology-image-analysis

Created 2024-06-24

18 commits to main branch, last one 2 months ago

PDL ChongQingNoSubway

29

111

mit

22

Code for the paper " PDL: Regularizing Multiple Instance Learning with Progressive Dropout Layers "

histopathology tumor-detection whole-slide-image whole-slide-imaging histopathology-images multiple-instance-learning weakly-supervised-learning histopathology-image-analysis

Created 2023-08-19

35 commits to main branch, last one 4 months ago

SISH mahmoodlab

26

100

gpl-3.0

4

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

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

Created 2021-05-31

69 commits to main branch, last one about a year ago

Pathology-GAN AdalbertoCq

22

95

unknown

8

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...

gans pathology-gan histopathology digital-pathology representation-learning generative-adversarial-network

Created 2019-01-11

290 commits to master branch, last one 3 years ago

pathology-whole-slide-data DIAGNijmegen

27

94

apache-2.0

6

A package for working with whole-slide data including a fast batch iterator that can be used to train deep learning models.

wsa wsd wsi wsm python iterator pathology deep-learning histopathology whole-slide-data whole-slide-mask whole-slide-image whole-slide-dataset whole-slide-imaging whole-slide-annotation computational-pathology

Created 2021-09-07

643 commits to main branch, last one 26 days ago

PyHIST manuel-munoz-aguirre

13

67

gpl-3.0

3

A pipeline to segment tissue from the background in histological images

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

Created 2018-11-14

141 commits to master branch, last one 4 years ago

ACMIL dazhangyu123

8

65

mit

2

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

acmil bracs camelyon16 histopathology pathology-image digital-pathology whole-slide-image computational-pathology multiple-instance-learning weakly-supervised-learning

Created 2023-11-12

30 commits to main branch, last one about a month ago

SSL_CR_Histo srinidhiPY

21

62

mit

5

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

camelyon16 breastpathq deep-learning histopathology digital-pathology annotation-efficient self-supervised-learning semi-supervised-learning teacher-student-training

Created 2021-02-04

141 commits to histo branch, last one 2 years ago

C2C YashSharma

12

61

mit

2

Implementation of Cluster-to-Conquer: A Framework for End-to-End Multi-Instance Learning for Whole Slide Image Classification approach.

deep-learning histopathology whole-slide-imaging multiple-instance-learning weakly-supervised-learning

Created 2021-03-15

29 commits to main branch, last one 3 years ago

Mixed_supervision bianhao123

13

53

gpl-3.0

1

MICCAI2022: Multiple Instance Learning with Mixed Supervision in Gleason Grading.

pytorch miccai2022 histopathology pytorch-lightning computational-pathology multiple-instance-learning

Created 2022-06-19

3 commits to master branch, last one 2 years ago

stainlib sebastianffx

8

51

mit

3

Python 3 library for the augmentation & normalization of H&E images

pathology histopathology image-processing image-augmentation image-normalization computational-pathology

Created 2020-11-17

25 commits to main branch, last one 2 years ago

pathology-he-auto-augment DIAGNijmegen

7

51

apache-2.0

6

H&E tailored Randaugment: automatic data augmentation policy selection for H&E-stained histopathology.

deep-learning histopathology data-augmentation

Created 2021-03-16

77 commits to main branch, last one about a year ago

Histomorphological-Phenotype-Learning AdalbertoCq

12

49

unknown

4

Corresponding code of 'Quiros A.C.+, Coudray N.+, Yeaton A., Yang X., Chiriboga L., Karimkhan A., Narula N., Pass H., Moreira A.L., Le Quesne J.*, Tsirigos A.*, and Yuan K.* Mapping the landscape of h...

clustering histopathology unsupervised-learning self-supervised-learning

Created 2022-06-20

179 commits to master branch, last one 24 days ago