25 results found Sort:

mahmoodlab
CLAM mahmoodlab
362
1.1k
gpl-3.0
22
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 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
4,004 commits to main branch, last one 20 hours ago
smistad
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
Dana-Farber-AIOS
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
1,383 commits to master branch, last one 2 days ago
TissueImageAnalytics
tiatoolbox TissueImageAnalytics
79
380
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
689 commits to develop branch, last one 13 days ago
histolab
histolab histolab
58
378
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 23 days ago
rapidsai
cucim rapidsai
60
352
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
535 commits to branch-24.12 branch, last one 9 days ago
mahmoodlab
UNI mahmoodlab
46
337
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 about a month ago
mahmoodlab
CONCH mahmoodlab
21
270
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 camicroscope
291
252
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
nadeemlab
DeepLIIF nadeemlab
65
169
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]
pytorch ai-ready datasets multiplex pathology stitching cell-biology segmentation deep-learning pathology-gan pathology-image super-resolution cell-segmentation digital-pathology image-segmentation multitask-learning whole-slide-imaging immunohistochemistry cloud-native-applications immunohistochemical-images
Created 2021-04-15
456 commits to main branch, last one 8 days ago
AICAN-Research
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 4 months ago
ImagingDataCommons
slim ImagingDataCommons
37
120
apache-2.0
10
Interoperable web-based slide microscopy viewer and annotation tool
oidc react dicomweb idc-viewers digital-pathology
Created 2021-02-02
187 commits to master branch, last one a day ago
EIDOSLAB
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
Bayer-Group
paquo Bayer-Group
16
104
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 3 months ago
mahmoodlab
MI-Zero mahmoodlab
4
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
AdalbertoCq
Pathology-GAN AdalbertoCq
22
92
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
Bayer-Group
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 8 months ago
okunator
cellseg_models.pytorch okunator
3
80
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
btcrabb
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
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
srinidhiPY
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
dazhangyu123
ACMIL dazhangyu123
8
61
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 26 days ago
andreped
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 4 months ago
MWod
DeeperHistReg MWod
2
31
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