Repositories list

• AgenticPathologyReports

  Public
  Repository for the paper "Errare algorithmicum est - Exploring General-Purpose Autonomous Multimodal Agents for Pathology Report Generation"

  HTML

  •1•1•0•0•Updated Mar 5, 2026Mar 5, 2026

• Exact

  Public
  An open source online platform for collaborative image labeling of almost everything

  version-controlannotationscollaboration+ 2

  version-controlannotationscollaborationwhole-slide-imagingalgorithm-aided

  JavaScript

  •

  MIT License

  •19•62•18•1•Updated Feb 25, 2026Feb 25, 2026

• SWAN

  Public
  Python

  •0•2•22•0•Updated Feb 8, 2026Feb 8, 2026

• MIDOG25_T1_evaluation_docker

  Public
  Repository for the evaluation script of submissions on MIDOG'25 on grand-challenge.

  Python

  •0•0•0•0•Updated Dec 30, 2025Dec 30, 2025

• AMi-Br_Benchmark

  Public
  Code for the paper 'Benchmarking Deep Learning and Vision Foundation Models for Atypical vs. Normal Mitosis Classification with Cross-Dataset Evaluation'

  Jupyter Notebook

  •

  MIT License

  •1•2•1•0•Updated Dec 12, 2025Dec 12, 2025

• FoundationModelComparison

  Public
  Code for our arxiv preprint: https://arxiv.org/abs/2508.04441

  Python

  •1•0•0•0•Updated Dec 12, 2025Dec 12, 2025

• DECOMP

  Public
  Python

  •0•0•0•0•Updated Dec 9, 2025Dec 9, 2025

• MIDOGpp

  Public
  A large, multi-domain mitotic Figure Dataset

  Python

  •

  MIT License

  •17•20•3•0•Updated Nov 8, 2025Nov 8, 2025

• MIDOG25_T1_reference_docker

  Public
  Reference algorithm for the MIDOG 2025 challenge, track 1 (Mitosis Detection)

  Python

  •1•0•0•0•Updated Aug 30, 2025Aug 30, 2025

• Annotation-free-VLM-specialization

  Public
  Python

  •0•2•1•0•Updated Aug 11, 2025Aug 11, 2025

• MIDOG_reference_docker

  Public
  Reference implementation of domain-adversarial training on a RetinaNet (to use as template in the MIDOG challenge)

  Python

  •11•8•2•0•Updated Jul 30, 2025Jul 30, 2025

• MIDOG25_T2_reference_docker

  Public
  Reference algorithm for the MIDOG 2025 challenge, track 2 (Atypical Mitosis Classification)

  Python

  •1•0•0•0•Updated Jul 30, 2025Jul 30, 2025

• SlideRunner

  Public
  SlideRunner is a tool for massive cell annotations in whole slide images

  Python

  •

  GNU General Public License v3.0

  •11•80•4•2•Updated Jul 29, 2025Jul 29, 2025

• MIDOG_evaluation_docker

  Public
  Evaluation container for the MIDOG 2021 challenge on grand-challenge.org

  Python

  •1•0•0•0•Updated Jul 29, 2025Jul 29, 2025

• MIDOG25_T2_evaluation_docker

  Public
  Evaluation docker container for MIDOG2025 on grand-challenge.org

  Python

  •0•0•0•0•Updated Jul 28, 2025Jul 28, 2025

• ChroMa-GI

  Public
  Code for the paper 'Chromosome Mask-Conditioned Generative Inpainting for Improved Atypical vs. Normal Mitosis Classification'

  Jupyter Notebook

  •1•1•0•0•Updated Jun 30, 2025Jun 30, 2025

• MITOS_WSI_CCMCT

  Public
  Large-Scale Canine Cutaneous Mast Cell Tumor Dataset for Mitotic Figure Assessment on Whole Slide Images

  Jupyter Notebook

  •9•30•1•0•Updated Jun 9, 2025Jun 9, 2025

• MITOS_WSI_CMC

  Public
  Large-Scale Canine Mammary Carcinoma Dataset for Mitotic Figure Assessment on Whole Slide Images

  Jupyter Notebook

  •10•21•2•0•Updated Jun 9, 2025Jun 9, 2025

• timm_parameters

  Public
  Comprehensive collection of configuration parameters for all deep learning models available in the timm (PyTorch Image Models) library.

  Jupyter Notebook

  •0•0•0•0•Updated Jun 4, 2025Jun 4, 2025

• EXACT-Sync

  Public
  Rest API sync with the EXACT Server https://github.com/ChristianMarzahl/Exact

  Python

  •

  MIT License

  •3•1•0•0•Updated May 30, 2025May 30, 2025

• FELIX

  Public
  Felinae Evaluation with Layperson and ML Interaction EXperience Dataset (FELIX)

  Jupyter Notebook

  •

  Creative Commons Attribution Share Alike 4.0 International

  •0•1•0•0•Updated May 19, 2025May 19, 2025

• EXACT-QueueRunner

  Public
  Repository for EXACT QueueRunner, a service that executes processing for jobs available on EXACT.

  Python

  •

  MIT License

  •2•2•0•0•Updated May 16, 2025May 16, 2025

• MIDOG_2025_Guide

  Public
  This repository will guide you through the initial steps to get started with the MIDOG 2025 competition. Here, you’ll find information on accessing the datasets…

  Python

  •3•3•0•0•Updated Apr 17, 2025Apr 17, 2025

• AMi-Br

  Public
  AMI-Br: A Dataset of Typical and Atypical Mitotic Figures on Human Breast Cancer

  Jupyter Notebook

  •0•10•0•0•Updated Apr 16, 2025Apr 16, 2025

• HDV

  Public
  Jupyter Notebook

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Apr 16, 2025Apr 16, 2025

• WsiRegistration

  Public
  Robust quad-tree based registration on whole slide images (Marzahl et al.)

  Python

  •

  MIT License

  •5•0•0•0•Updated Apr 3, 2025Apr 3, 2025

• CanineCutaneousTumors

  Public
  Jupyter Notebook

  •0•10•0•0•Updated Jan 9, 2025Jan 9, 2025

• TCGA-BRCA-TumorArea-Coarse

  Public
  Coarse annotations of tumor areas from the TCGA-BRCA dataset

  Python

  •0•0•0•0•Updated Nov 7, 2024Nov 7, 2024

• TUPAC16_AlternativeLabels

  Public
  Alternative training set for the TUPAC16 auxiliary mitotic figure data set

  Jupyter Notebook

  •4•12•0•0•Updated Oct 22, 2024Oct 22, 2024

• deep-learning-optimizing-linear-regresision-github-starter-course

  Public
  deep-learning-optimizing-linear-regresision-github-starter-course created by GitHub Classroom

  0•1•0•0•Updated Aug 20, 2024Aug 20, 2024