DeepMicroscopy - Generating Deep Insights from Deep Learning in Microscopy
This is our central home for all our digital pathology projects, focusing on deep learning.
Germany
Pinned Repositories
AdaptiveRegionSelection
CanineCutaneousTumors
Exact
An open source online platform for collaborative image labeling of almost everything
MIDOG
MItosis DOmain Generalization Challenge 2021/2022
MIDOG_reference_docker
Reference implementation of domain-adversarial training on a RetinaNet (to use as template in the MIDOG challenge)
MIDOGpp
A large, multi-domain mitotic Figure Dataset
MITOS_WSI_CCMCT
Large-Scale Canine Cutaneous Mast Cell Tumor Dataset for Mitotic Figure Assessment on Whole Slide Images
MITOS_WSI_CMC
Large-Scale Canine Mammary Carcinoma Dataset for Mitotic Figure Assessment on Whole Slide Images
SlideRunner
SlideRunner is a tool for massive cell annotations in whole slide images
TUPAC16_AlternativeLabels
Alternative training set for the TUPAC16 auxiliary mitotic figure data set
DeepMicroscopy - Generating Deep Insights from Deep Learning in Microscopy's Repositories
DeepMicroscopy/SlideRunner
SlideRunner is a tool for massive cell annotations in whole slide images
DeepMicroscopy/Exact
An open source online platform for collaborative image labeling of almost everything
DeepMicroscopy/MITOS_WSI_CCMCT
Large-Scale Canine Cutaneous Mast Cell Tumor Dataset for Mitotic Figure Assessment on Whole Slide Images
DeepMicroscopy/MIDOGpp
A large, multi-domain mitotic Figure Dataset
DeepMicroscopy/TUPAC16_AlternativeLabels
Alternative training set for the TUPAC16 auxiliary mitotic figure data set
DeepMicroscopy/AdaptiveRegionSelection
DeepMicroscopy/Cox_AMIL
Code for our BVM workshop submission "Attention-based Multiple Instance Learning for Survival Prediction on Lung Cancer Tissue Microarrays"
DeepMicroscopy/MultiScanner_SCC
DeepMicroscopy/QuiltCleaner
Automatic cleaning of the QUILT-1M pathology dataset
DeepMicroscopy/CrossScannerRegistration
DeepMicroscopy/nnUNet
DeepMicroscopy/EXACT-QueueRunner
Repository for EXACT QueueRunner, a service that executes processing for jobs available on EXACT.
DeepMicroscopy/HierarchicalFCOS
Automatic Subtyping for Atypical and Typical Mitosis using a Hierarchical Anchor-Free Object Detector
DeepMicroscopy/VisualRepresentationSurvey
DeepMicroscopy/TCGA-BRCA-TumorArea-Coarse
Coarse annotations of tumor areas from the TCGA-BRCA dataset
DeepMicroscopy/AIRoV
DeepMicroscopy/AMI-Br
AMI-Br: A Dataset of Typical and Atypical Mitotic Figures on Human Breast Cancer
DeepMicroscopy/CD3-Detection
DeepMicroscopy/COSAS
DeepMicroscopy/deep-learning-optimizing-linear-regresision-github-starter-course
deep-learning-optimizing-linear-regresision-github-starter-course created by GitHub Classroom
DeepMicroscopy/EXACT-Sync
Rest API sync with the EXACT Server https://github.com/ChristianMarzahl/Exact
DeepMicroscopy/FELIX
Felinae Evaluation with Layperson and ML Interaction EXperience Dataset (FELIX)
DeepMicroscopy/HDV
DeepMicroscopy/Histopathology-Datasets
Ressources of histopathology datasets
DeepMicroscopy/MIDOG_evaluation_docker
Evaluation container for the MIDOG 2021 challenge on grand-challenge.org
DeepMicroscopy/MIDOG_LaTeX_template
LaTeX Template for short papers for the MIDOG challenge, based upon the HenriquesLab bioRxiv template
DeepMicroscopy/nnUNet-for-pathology
Adapted nnUNet framework with additional features to suit the requirements for pathology applications
DeepMicroscopy/Prototype-sampling
DeepMicroscopy/SlideRunner_dataAccess
Data access routines (database and images) for SlideRunner
DeepMicroscopy/WsiRegistration
Robust quad-tree based registration on whole slide images (Marzahl et al.)