DeepMicroscopy - Generating Deep Insights from Deep Learning in Microscopy's repositories
SlideRunner
SlideRunner is a tool for massive cell annotations in whole slide images
MITOS_WSI_CCMCT
Large-Scale Canine Cutaneous Mast Cell Tumor Dataset for Mitotic Figure Assessment on Whole Slide Images
MIDOG_reference_docker
Reference implementation of domain-adversarial training on a RetinaNet (to use as template in the MIDOG challenge)
QuiltCleaner
Automatic cleaning of the QUILT-1M pathology dataset
AnonymizeSlide
Delete the label from a whole-slide image
EXACT-QueueRunner
Repository for EXACT QueueRunner, a service that executes processing for jobs available on EXACT.
HierarchicalFCOS
Automatic Subtyping for Atypical and Typical Mitosis using a Hierarchical Anchor-Free Object Detector
EXACT-Sync
Rest API sync with the EXACT Server https://github.com/ChristianMarzahl/Exact
FELIX
Felinae Evaluation with Layperson and ML Interaction EXperience Dataset (FELIX)
Histopathology-Datasets
Ressources of histopathology datasets
MIDOG_evaluation_docker
Evaluation container for the MIDOG 2021 challenge on grand-challenge.org
MIDOG_LaTeX_template
LaTeX Template for short papers for the MIDOG challenge, based upon the HenriquesLab bioRxiv template
nnUNet-for-pathology
Adapted nnUNet framework with additional features to suit the requirements for pathology applications
openslide
C library for reading virtual slide images
SlideRunner_dataAccess
Data access routines (database and images) for SlideRunner
WsiRegistration
Robust quad-tree based registration on whole slide images (Marzahl et al.)