Search Results - RepositoryStats

364

1.1k

gpl-3.0

21

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

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 6 months ago

qupath qupath

281

1.1k

gpl-3.0

56

QuPath - Open-source bioimage analysis for research

groovy imagej javafx opencv histology pathology cell-analysis image-processing machine-learning bioimage-analysis cell-segmentation digital-pathology whole-slide-imaging bioimage-informatics computational-pathology tissue-microarray-analysis

Created 2016-08-28

4,010 commits to main branch, last one 6 days ago

FAST smistad

102

441

bsd-2-clause

31

A framework for high-performance medical image processing, neural network inference and visualization

opencl python streaming ultrasound deep-learning gpu-computing visualization medical-imaging image-processing digital-pathology parallel-computing

Created 2014-03-18

3,783 commits to master branch, last one 2 months ago

pathml Dana-Farber-AIOS

84

392

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 14 days ago

tiatoolbox TissueImageAnalytics

80

385

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

693 commits to develop branch, last one 5 days ago

histolab histolab

59

379

apache-2.0

6

Library for Digital Pathology Image Processing

wsi python biology research pathology data-science hacktoberfest bioinformatics science-research digital-pathology digital-pathology-data

Created 2020-05-09

1,482 commits to main branch, last one about a month ago

cucim rapidsai

61

356

apache-2.0

15

cuCIM - RAPIDS GPU-accelerated image processing library

gpu cuda nvidia image-data microscopy segmentation image-analysis computer-vision medical-imaging image-processing digital-pathology multidimensional-image-processing

Created 2021-04-09

536 commits to branch-24.12 branch, last one 7 days ago

UNI mahmoodlab

47

347

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

CONCH mahmoodlab

21

279

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

caMicroscope camicroscope

295

255

bsd-3-clause

25

Digital pathology image viewer with support for human/machine generated annotations and markups.

camicroscope slide-images digital-pathology whole-slide-imaging

Created 2016-08-14

3,026 commits to master branch, last one 6 months ago

DeepLIIF nadeemlab

66

173

other

6

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

Created 2021-04-15

456 commits to main branch, last one 22 days ago

FAST-Pathology AICAN-Research

26

122

bsd-2-clause

5

⚡ Open-source software for deep learning-based digital pathology

opencl opengl pytorch openvino software tensorrt cplusplus inference deployment tensorflow free-to-use deep-learning fastpathology machine-learning digital-pathology computational-pathology convolutional-neural-networks

Created 2019-07-09

491 commits to master branch, last one 5 months ago

slim ImagingDataCommons

39

120

apache-2.0

11

Interoperable web-based slide microscopy viewer and annotation tool

oidc react dicomweb idc-viewers digital-pathology

Created 2021-02-02

190 commits to master branch, last one 17 hours ago

torchstain EIDOSLAB

20

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

paquo Bayer-Group

16

105

gpl-3.0

10

PAthological QUpath Obsession - QuPath and Python conversations

python qupath digital-pathology

Created 2020-07-06

619 commits to main branch, last one 4 months ago

MI-Zero mahmoodlab

5

93

other

4

Visual Language Pretrained Multiple Instance Zero-Shot Transfer for Histopathology Images - CVPR 2023

mil pathology mahmoodlab digital-pathology zero-shot-learning zero-shot-pathology image-text-pathology quantitative-pathology computational-pathology vision-language-pathology

Created 2023-04-17

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

Pathology-GAN AdalbertoCq

22

93

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

tiffslide Bayer-Group

12

85

other

7

TiffSlide - cloud native openslide-python replacement based on tifffile

python digital-pathology

Created 2021-03-18

393 commits to main branch, last one 9 months ago

cellseg_models.pytorch okunator

3

81

mit

2

Encoder-Decoder Cell and Nuclei segmentation models

ai ml timm pytorch cellpose hovernet omnipose stardist accelerate microscopy cell-segmentation digital-pathology pytorch-lightning nuclei-segmentation tissue-segmentation panoptic-segmentation

Created 2022-01-22

344 commits to main branch, last one 4 months ago

SlideSeg btcrabb

24

79

mit

5

A Python module that produces image patches and annotation masks from whole slide images for deep learning in digital pathology.

digital-pathology whole-slide-imaging semantic-segmentation convolutional-neural-networks

Created 2017-09-11

47 commits to master branch, last one 2 years ago

Cytomine-core cytomine

31

70

apache-2.0

17

Cytomine-Core is the main web server implementing the Cytomine API

cytomine machine-learning digital-pathology whole-slide-imaging computational-pathology

Created 2014-02-01

3,900 commits to master branch, last one about a year ago

ACMIL dazhangyu123

8

64

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

NoCodeSeg andreped

16

52

mit

5

🔬 Code-free deep segmentation for computational pathology

cpp java u-net matlab qupath deepmib annotation multi-class deep-learning fastpathology open-datasets medical-imaging open-annotations digital-pathology semantic-segmentation convolutional-neural-networks

Created 2021-09-30

265 commits to main branch, last one 5 months ago

DeeperHistReg MWod

3

34

cc-by-sa-4.0

2

DeeperHistReg - Source Code

wsi-images deep-learning histopathology wsi-registration digital-pathology image-registration

Created 2022-08-23

11 commits to main branch, last one 6 months ago