18 results found Sort:

MouseLand
cellpose MouseLand
402
1.4k
bsd-3-clause
29
a generalist algorithm for cellular segmentation with human-in-the-loop capabilities
cell-biology segmentation cell-segmentation
Created 2020-02-01
1,038 commits to main branch, last one a day 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
4,010 commits to main branch, last one 7 days ago
stardist
stardist stardist
221
929
bsd-3-clause
27
StarDist - Object Detection with Star-convex Shapes
python deep-learning object-detection bioimage-analysis cell-segmentation nuclei-segmentation
Created 2018-06-26
950 commits to main branch, last one 3 months ago
TissueImageAnalytics
tiatoolbox TissueImageAnalytics
81
386
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
694 commits to develop branch, last one a day ago
computational-cell-analytics
micro-sam computational-cell-analytics
47
367
mit
7
Segment Anything for Microscopy
napari segmentation segment-anything cell-segmentation microscopy-images nuclei-segmentation mitochondria-segmentation
Created 2023-05-03
1,156 commits to master branch, last one 19 hours ago
aristoteleo
spateo-release aristoteleo
30
216
bsd-2-clause
6
Spatiotemporal modeling of spatial transcriptomics
spatiotemporal 3d-reconstruction cell-segmentation spatial-transcriptomics
Created 2021-02-22
1,760 commits to main branch, last one 4 days ago
nadeemlab
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]
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 24 days ago
yaoguangluo
ETL_Unicorn yaoguangluo
76
166
gpl-2.0
10
数据可视化, 数据挖掘, 数据处理 ETL分析
etl nero skin theme applet pipline workflow data-mining batch-script data-analysis workflow-engine reused-component cell-segmentation data-visualization component-architecture
Created 2017-06-19
303 commits to master branch, last one 2 years ago
Lee-Gihun
MEDIAR Lee-Gihun
29
142
mit
5
(NeurIPS 2022 CellSeg Challenge - 1st Winner) Open source code for "MEDIAR: Harmony of Data-Centric and Model-Centric for Multi-Modality Microscopy"
monai pytorch biomedical miscroscopy cell-biology neurips-2022 multi-modality multi-resolution cell-segmentation vision-transformer pytorch-segmentation instance-segmentation pytorch-implementation
Created 2022-11-16
79 commits to main branch, last one 7 months ago
FZJ-INM1-BDA
celldetection FZJ-INM1-BDA
21
125
apache-2.0
7
Scalable Instance Segmentation using PyTorch & PyTorch Lightning.
cpn fpn unet pytorch mask-rcnn cell-counting celldetection deep-learning cell-detection object-detection cell-segmentation instance-segmentation semantic-segmentation
Created 2021-03-18
409 commits to main branch, last one 24 days ago
amirhossein-kz
HiFormer amirhossein-kz
22
120
mit
3
HiFormer: Hierarchical Multi-scale Representations Using Transformers for Medical Image Segmentation (WACV 2023)
segpc transformers cell-segmenation cell-segmentation semantic-segmentation multi-organ-segmentation skin-lesion-segmentation medical-image-segmentation
Created 2022-05-03
115 commits to main branch, last one 8 months ago
ChristophReich1996
Cell-DETR ChristophReich1996
23
100
mit
2
Official and maintained implementation of the paper "Attention-Based Transformers for Instance Segmentation of Cells in Microstructures" [BIBM 2020].
attention bibm-2020 cell-detr transformer deep-learning system-biology cell-segmentation synthetic-biology instance-segmentation
Created 2020-11-05
13 commits to master branch, last one 2 years ago
royerlab
ultrack royerlab
12
94
bsd-3-clause
6
Cell tracking and segmentation software
gurobi cell-tracking cell-segmentation cell-tracking-challenge
Created 2022-08-24
387 commits to main branch, last one 4 days 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
mkang315
ASF-YOLO mkang315
3
69
agpl-3.0
2
[IMAVIS] Official implementation of "ASF-YOLO: A Novel YOLO Model with Attentional Scale Sequence Fusion for Cell Instance Segmentation".
yolo cell-detection cell-segmentation nucleus-detection breast-cancer-cell lesion-segmentation nuclei-segmentation deep-neural-networks instance-segmentation data-science-bowl-2018 medical-image-analysis deep-learning-framework medical-image-computing medical-image-processing breast-cancer-segmentation computer-vision-algorithms hematoxylin-eosin-staining medical-image-segmentation histopathology-image-analysis detection-segmentation-algorithm
Created 2023-12-10
78 commits to main branch, last one 2 days ago
Omid-Nejati
BEFUnet Omid-Nejati
5
41
mit
1
A Hybrid CNN-Transformer Architecture for Precise Medical Image Segmentation
medical segmentation transformers deep-learning colab-notebook medical-imaging cell-segmentation hybrid-transformer multi-organ-segmentation skin-lesion-segmentation
Created 2024-02-12
13 commits to main branch, last one 5 months ago
wanglab-broad
ClusterMap wanglab-broad
11
41
gpl-3.0
1
ClusterMap for multi-scale clustering analysis of spatial gene expression
spatial-omics bioinformatics transcriptomics cell-segmentation in-situ-sequencing single-cell-analysis spatial-transcriptomics
Created 2021-09-29
76 commits to main branch, last one 4 months ago
stardist
stardist-napari stardist
11
36
bsd-3-clause
4
StarDist plugin for napari
napari deep-learning napari-plugin object-detection cell-segmentation nuclei-segmentation
Created 2021-04-15
212 commits to main branch, last one 3 months ago