Repositories list

• nnUNet

  Public
  segmentation

  segmentation

  Python

  •

  Apache License 2.0

  •2.4k2.4k forks•8.3k8.3k stars•278278 issues•1414 pull requests•Updated Apr 14, 2026Apr 14, 2026

• MeisenMeister

  Public

  MIC-DKFZ/MeisenMeister’s past year of commit activity
  Winning Solution of the ODELIA Breast MRI Challenge 2025

  Python

  •

  Apache License 2.0

  •00 forks•88 stars•00 issues•00 pull requests•Updated Apr 13, 2026Apr 13, 2026

• MedVol

  Public

  MIC-DKFZ/MedVol’s past year of commit activity
  Python wrapper to unify reading/writing via NiBabel, pynrrd and SimpleITK within a unified and simple interface.

  Python

  •

  Apache License 2.0

  •00 forks•1818 stars•00 issues•00 pull requests•Updated Apr 10, 2026Apr 10, 2026

• napari-nifti

  Public
  Python

  •

  Apache License 2.0

  •00 forks•55 stars•11 issue•00 pull requests•Updated Apr 10, 2026Apr 10, 2026

• napari-nninteractive

  Public

  MIC-DKFZ/napari-nninteractive’s past year of commit activity
  nnInteractive plugin for Napari - nnInteractive is a framework for 3D interactive segmentation, supporting intuitive prompts like points, scribbles, bounding bo…

  Python

  •

  Apache License 2.0

  •1515 forks•113113 stars•1111 issues•22 pull requests•Updated Apr 10, 2026Apr 10, 2026

• nnInteractive

  Public

  MIC-DKFZ/nnInteractive’s past year of commit activity
  nnInteractive is a framework for 3D interactive segmentation, supporting intuitive prompts like points, scribbles, bounding boxes, and lasso. Trained on 120+ di…

  Python

  •

  Apache License 2.0

  •4343 forks•379379 stars•1414 issues•00 pull requests•Updated Apr 10, 2026Apr 10, 2026

• napari-mlarray

  Public
  A reader/writer Napari plugin for MLArray images

  Python

  •

  MIT License

  •00 forks•11 star•00 issues•11 pull request•Updated Apr 9, 2026Apr 9, 2026

• batchgeneratorsv2

  Public
  Python

  •

  Apache License 2.0

  •1717 forks•2929 stars•11 issue•44 pull requests•Updated Apr 9, 2026Apr 9, 2026

• acvl_utils

  Public

  MIC-DKFZ/acvl_utils’s past year of commit activity
  Python

  •

  Apache License 2.0

  •44 forks•1212 stars•44 issues•22 pull requests•Updated Apr 9, 2026Apr 9, 2026

• mlarray

  Public

  MIC-DKFZ/mlarray’s past year of commit activity
  Array format specialized for Machine Learning with Blosc2 backend and standardized metadata.

  Python

  •

  MIT License

  •00 forks•2020 stars•00 issues•00 pull requests•Updated Apr 8, 2026Apr 8, 2026

• image_classification

  Public
  :dart: Deep Learning Framework for Image Classification & Regression in Pytorch for Fast Experiments

  frameworkcomputer-visionlightning+ 13

  frameworkcomputer-visionlightningdeep-learningimage-processingregressioncnnpytorchhydraclassification+ 6

  Python

  •

  Apache License 2.0

  •11 fork•5858 stars•00 issues•00 pull requests•Updated Apr 7, 2026Apr 7, 2026

• BreastDivider

  Public

  MIC-DKFZ/BreastDivider’s past year of commit activity
  Python

  •

  Apache License 2.0

  •11 fork•2525 stars•11 issue•00 pull requests•Updated Apr 3, 2026Apr 3, 2026

• radtract

  Public

  MIC-DKFZ/radtract’s past year of commit activity
  RadTract: enhanced tractometry with radiomics-based imaging biomarkers for improved predictive modelling.

  Python

  •00 forks•1515 stars•00 issues•00 pull requests•Updated Apr 2, 2026Apr 2, 2026

• ViData

  Public

  MIC-DKFZ/ViData’s past year of commit activity
  A unified Python toolkit for managing, processing, and analyzing 2D and 3D vision data — from raw files to task-aware analytics. Designed to streamline computer…

  Python

  •

  Apache License 2.0

  •00 forks•44 stars•00 issues•00 pull requests•Updated Apr 2, 2026Apr 2, 2026

• LesionLocator

  Public

  MIC-DKFZ/LesionLocator’s past year of commit activity
  LesionLocator is a framework for zero-shot lesion segmentation and longitudinal tumor tracking in 3D full-body imaging.

  trackingtumorsegmentation+ 2

  trackingtumorsegmentation3dlesion

  Python

  •

  GNU General Public License v3.0

  •99 forks•103103 stars•33 issues•00 pull requests•Updated Apr 1, 2026Apr 1, 2026

• LongiSeg

  Public

  MIC-DKFZ/LongiSeg’s past year of commit activity
  Python

  •

  Apache License 2.0

  •44 forks•3232 stars•77 issues•00 pull requests•Updated Mar 31, 2026Mar 31, 2026

• napari-layer-statistics

  Public

  MIC-DKFZ/napari-layer-statistics’s past year of commit activity
  Compact layer inspector for napari: fast statistics, editable geometry/camera fields, and clipboard-friendly summaries in one widget.

  Python

  •

  Apache License 2.0

  •00 forks•11 star•00 issues•00 pull requests•Updated Mar 26, 2026Mar 26, 2026

• VoxTell

  Public

  MIC-DKFZ/VoxTell’s past year of commit activity
  Free-Text Promptable Universal 3D Medical Image Segmentation

  Python

  •

  Apache License 2.0

  •1717 forks•180180 stars•44 issues•00 pull requests•Updated Mar 25, 2026Mar 25, 2026

• dynamic-network-architectures

  Public
  Python

  •

  Apache License 2.0

  •5757 forks•155155 stars•55 issues•22 pull requests•Updated Mar 20, 2026Mar 20, 2026

• confly

  Public

  MIC-DKFZ/confly’s past year of commit activity
  Python

  •

  Apache License 2.0

  •00 forks•22 stars•00 issues•00 pull requests•Updated Mar 13, 2026Mar 13, 2026

• nnActive

  Public
  nnActive -- code, benchmark and results for the largest study of Active Learning for 3D Biomedical Imaging.

  machine-learningcomputer-visionsegmentation+ 3

  machine-learningcomputer-visionsegmentationactive-learningnnu-net3d-biomedical

  Python

  •

  Apache License 2.0

  •00 forks•1919 stars•00 issues•00 pull requests•Updated Mar 12, 2026Mar 12, 2026

• MatchPoint

  Public
  MatchPoint is a translational image registration framework written in C++. It offers a standardized interface to utilize several registration algorithm resource…

  C++

  •33 forks•55 stars•00 issues•00 pull requests•Updated Mar 10, 2026Mar 10, 2026

• deki-smpc

  Public
  Python

  •

  Apache License 2.0

  •00 forks•44 stars•00 issues•00 pull requests•Updated Mar 9, 2026Mar 9, 2026

• deki-smpc-server

  Public
  Python

  •

  Apache License 2.0

  •00 forks•33 stars•00 issues•00 pull requests•Updated Mar 9, 2026Mar 9, 2026

• nnLandmark

  Public
  Python

  •

  Apache License 2.0

  •44 forks•3030 stars•11 issue•00 pull requests•Updated Mar 3, 2026Mar 3, 2026

• napari-voxtell

  Public
  Python

  •

  Apache License 2.0

  •00 forks•2020 stars•00 issues•00 pull requests•Updated Feb 27, 2026Feb 27, 2026

• MITK-Diffusion

  Public
  MITK Diffusion - Official part of the Medical Imaging Interaction Toolkit

  simulationdicomregistration+ 17

  simulationdicomregistrationsegmentationmodellingbrainpeakdiffusion-mritractographydenoising+ 10

  C++

  •

  Other

  •1616 forks•102102 stars•55 issues•00 pull requests•Updated Feb 24, 2026Feb 24, 2026

• TractSeg

  Public
  Automatic White Matter Bundle Segmentation

  Python

  •

  Apache License 2.0

  •8080 forks•257257 stars•6161 issues•22 pull requests•Updated Feb 23, 2026Feb 23, 2026

• panther

  Public
  Python

  •

  Apache License 2.0

  •22 forks•66 stars•00 issues•00 pull requests•Updated Feb 17, 2026Feb 17, 2026

• Longitudinal4DMed

  Public
  Python

  •00 forks•1010 stars•00 issues•00 pull requests•Updated Jan 22, 2026Jan 22, 2026