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@MIC-DKFZ

MIC-DKFZ

Division of Medical Image Computing, German Cancer Research Center (DKFZ)

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  1. nnUNet nnUNet Public

    Python 8.9k 2.5k

  2. batchgenerators batchgenerators Public

    A framework for data augmentation for 2D and 3D image classification and segmentation

    Jupyter Notebook 1.2k 231

  3. trixi trixi Public

    Manage your machine learning experiments with trixi - modular, reproducible, high fashion. An experiment infrastructure optimized for PyTorch, but flexible enough to work for your framework and you…

    Python 228 21

  4. TractSeg TractSeg Public

    Automatic White Matter Bundle Segmentation

    Python 268 80

  5. basic_unet_example basic_unet_example Public

    An example project of how to use a U-Net for segmentation on medical images with PyTorch.

    Python 153 43

  6. nnDetection nnDetection Public

    nnDetection is a self-configuring framework for 3D (volumetric) medical object detection which can be applied to new data sets without manual intervention. It includes guides for 12 data sets that …

    Python 658 123

Repositories

Showing 10 of 127 repositories
  • napari-nninteractive Public

    nnInteractive plugin for Napari - nnInteractive is a framework for 3D interactive segmentation, supporting intuitive prompts like points, scribbles, bounding boxes, and lasso. Trained on 120+ diverse 3D datasets, it sets a new standard in accuracy, usability, and adaptability for clinical and research applications.

    MIC-DKFZ/napari-nninteractive's past year of commit activity
    Python 123 Apache-2.0 19 15 3 Updated Sep 21, 2026
  • VoxTell Public

    Free-Text Promptable Universal 3D Medical Image Segmentation

    MIC-DKFZ/VoxTell's past year of commit activity
    Python 268 Apache-2.0 29 2 0 Updated Sep 21, 2026
  • LongiTrack-backend Public
    MIC-DKFZ/LongiTrack-backend's past year of commit activity
    Python 5 Apache-2.0 0 0 0 Updated Sep 21, 2026
  • nnunet-eucaim-docker Public

    This repository provides Docker images for running nnUNet inference in a reproducible and containerized environment, tailored for the EUCAIM project.

    MIC-DKFZ/nnunet-eucaim-docker's past year of commit activity
    Dockerfile 0 Apache-2.0 1 0 0 Updated Sep 21, 2026
  • LesionLocator Public

    LesionLocator is a framework for zero-shot lesion segmentation and longitudinal tumor tracking in 3D full-body imaging.

    MIC-DKFZ/LesionLocator's past year of commit activity
    Python 112 GPL-3.0 14 4 0 Updated Sep 21, 2026
  • blosc2-containerization Public

    Efficient management and storage of large-scale 3D medical imaging data using Blosc2 multi-image containers in Python.

    MIC-DKFZ/blosc2-containerization's past year of commit activity
    Python 1 MIT 0 0 0 Updated Sep 17, 2026
  • LongiSeg Public
    MIC-DKFZ/LongiSeg's past year of commit activity
    Python 56 Apache-2.0 7 0 0 Updated Sep 15, 2026
  • postprocessing_lateCTA Public
    MIC-DKFZ/postprocessing_lateCTA's past year of commit activity
    Python 0 Apache-2.0 0 0 0 Updated Sep 14, 2026
  • nnUNet Public
    MIC-DKFZ/nnUNet's past year of commit activity
    Python 8,902 Apache-2.0 2,487 71 23 Updated Sep 14, 2026
  • Longitudinal-Difference-Weighting Public

    Longitudinal Segmentation of MS Lesions via Temporal Difference Weighting

    MIC-DKFZ/Longitudinal-Difference-Weighting's past year of commit activity
    Python 13 Apache-2.0 1 1 0 Updated Sep 11, 2026
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