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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 9k 2.5k

  2. batchgenerators batchgenerators Public

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

    Jupyter Notebook 1.2k 234

  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 227 21

  4. TractSeg TractSeg Public

    Automatic White Matter Bundle Segmentation

    Python 272 82

  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 664 125

Repositories

Showing 10 of 133 repositories
  • mlarray Public

    Array format specialized for Machine Learning with Blosc2 backend and standardized metadata.

    MIC-DKFZ/mlarray's past year of commit activity
    Python 23 MIT 0 0 0 Updated Nov 6, 2026
  • SlicerMLArray Public

    3D Slicer extension for MLArray (.mla) files: images as volumes, label maps as segmentations with names, colours and codes, bounding boxes as ROIs.

    MIC-DKFZ/SlicerMLArray's past year of commit activity
    Python 0 MIT 0 0 0 Updated Nov 6, 2026
  • nnWorkbench Public

    GUI and CLI for nnU-Net and nnInteractive-powered annotation. Train, validate and apply nnU-Net on labelled images, or start from unlabelled ones: create labels with nnInteractive and scribbles, then train and improve the model in iterations.

    MIC-DKFZ/nnWorkbench's past year of commit activity
    Python 2 Apache-2.0 0 0 0 Updated Nov 6, 2026
  • napari-nifti Public
    MIC-DKFZ/napari-nifti's past year of commit activity
    Python 6 Apache-2.0 0 1 0 Updated Nov 6, 2026
  • napari-mlarray Public

    A reader/writer Napari plugin for MLArray images

    MIC-DKFZ/napari-mlarray's past year of commit activity
    Python 1 MIT 0 0 1 Updated Nov 6, 2026
  • MedVol Public

    Python wrapper to unify reading/writing via NiBabel, pynrrd and SimpleITK within a unified and simple interface.

    MIC-DKFZ/MedVol's past year of commit activity
    Python 19 Apache-2.0 0 0 0 Updated Nov 6, 2026
  • batchgeneratorsv2 Public
    MIC-DKFZ/batchgeneratorsv2's past year of commit activity
    Python 33 Apache-2.0 19 0 0 Updated Nov 6, 2026
  • nnUNet Public
    MIC-DKFZ/nnUNet's past year of commit activity
    Python 9,020 Apache-2.0 2,508 36 6 Updated Nov 5, 2026
  • batchgenerators Public

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

    MIC-DKFZ/batchgenerators's past year of commit activity
    Jupyter Notebook 1,177 Apache-2.0 234 36 0 Updated Nov 4, 2026
  • acvl_utils Public
    MIC-DKFZ/acvl_utils's past year of commit activity
    Python 12 Apache-2.0 4 5 2 Updated Oct 29, 2026
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