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@DeepMicroscopy

DeepMicroscopy - Generating Deep Insights from Deep Learning in Microscopy

This is our central home for all our digital pathology projects, focusing on deep learning.

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  1. SlideRunner SlideRunner Public

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

    Python 78 10

  2. Exact Exact Public

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

    JavaScript 59 19

  3. MITOS_WSI_CCMCT MITOS_WSI_CCMCT Public

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

    Jupyter Notebook 29 10

  4. MITOS_WSI_CMC MITOS_WSI_CMC Public

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

    Jupyter Notebook 21 9

  5. MIDOG MIDOG Public

    MItosis DOmain Generalization Challenge 2021/2022

    Python 14 5

  6. MIDOGpp MIDOGpp Public

    A large, multi-domain mitotic Figure Dataset

    Python 14 9

Repositories

Showing 10 of 40 repositories
  • Exact Public

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

    DeepMicroscopy/Exact’s past year of commit activity
    JavaScript 59 MIT 19 11 2 Updated May 9, 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, setting up your environment, and exploring example workflows to help you begin developing your algorithms.

    DeepMicroscopy/MIDOG_2025_Guide’s past year of commit activity
    Python 1 1 0 0 Updated Apr 17, 2025
  • AMi-Br Public

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

    DeepMicroscopy/AMi-Br’s past year of commit activity
    Jupyter Notebook 6 0 0 0 Updated Apr 16, 2025
  • HDV Public
    DeepMicroscopy/HDV’s past year of commit activity
    Jupyter Notebook 0 GPL-3.0 0 0 0 Updated Apr 16, 2025
  • WsiRegistration Public Forked from ChristianMarzahl/WsiRegistration

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

    DeepMicroscopy/WsiRegistration’s past year of commit activity
    Python 0 MIT 6 0 0 Updated Apr 3, 2025
  • TriCon-GI Public

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

    DeepMicroscopy/TriCon-GI’s past year of commit activity
    Jupyter Notebook 0 1 0 0 Updated Feb 27, 2025
  • CanineCutaneousTumors Public
    DeepMicroscopy/CanineCutaneousTumors’s past year of commit activity
    Jupyter Notebook 9 1 0 0 Updated Jan 9, 2025
  • MIDOGpp Public

    A large, multi-domain mitotic Figure Dataset

    DeepMicroscopy/MIDOGpp’s past year of commit activity
    Python 14 MIT 9 2 1 Updated Jan 4, 2025
  • FELIX Public

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

    DeepMicroscopy/FELIX’s past year of commit activity
    Jupyter Notebook 0 CC-BY-SA-4.0 0 0 0 Updated Nov 12, 2024
  • TCGA-BRCA-TumorArea-Coarse Public

    Coarse annotations of tumor areas from the TCGA-BRCA dataset

    DeepMicroscopy/TCGA-BRCA-TumorArea-Coarse’s past year of commit activity
    Python 0 0 0 0 Updated Nov 7, 2024
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