Repositories list

• MedNeXt

  Public
  [MICCAI 2023] MedNeXt is a fully ConvNeXt architecture for 3D medical image segmentation.

  transformersmedical-imagingmedical-image-analysis+ 7medical-image-segmentationunet-image-segmentationmri-segmentationmedical-aict-segmentationconvnextmednext

  Python

  •

  Apache License 2.0

  •26•335•11•0•Updated Nov 2, 2024Nov 2, 2024

• nnUNet

  Public
  segmentation

  Python

  •

  Apache License 2.0

  •1.7k•5.8k•236•15•Updated Oct 29, 2024Oct 29, 2024

• autopet-3-submission

  Public
  Python

  •

  Apache License 2.0

  •1•4•1•1•Updated Oct 29, 2024Oct 29, 2024

• miccai2024_midi-b-submission

  Public
  Python

  •

  Apache License 2.0

  •0•2•0•0•Updated Oct 20, 2024Oct 20, 2024

• acvl_utils

  Public
  Python

  •2•7•0•1•Updated Oct 18, 2024Oct 18, 2024

• HD-BET

  Public
  MRI brain extraction tool

  Python

  •

  Apache License 2.0

  •66•281•20•7•Updated Oct 17, 2024Oct 17, 2024

• MurineAirwaySegmentation

  Public
  This is a joint project between Helmholtz Imaging (located at DKFZ) and Lin Yang and Otmar Schmid (Helmholtz Munich).

  Python

  •

  Apache License 2.0

  •1•7•1•0•Updated Oct 7, 2024Oct 7, 2024

• Longitudinal-Difference-Weighting

  Public
  Longitudinal Segmentation of MS Lesions via Temporal Difference Weighting

  Apache License 2.0

  •0•0•0•0•Updated Oct 3, 2024Oct 3, 2024

• miccai2024_cl-detection2024

  Public
  Python

  •

  Apache License 2.0

  •0•0•0•0•Updated Oct 2, 2024Oct 2, 2024

• miccai2024_autopet3_datacentric

  Public
  Python

  •

  Apache License 2.0

  •1•3•0•0•Updated Oct 1, 2024Oct 1, 2024

• agent-sam

  Public
  Segment Anything model wrapper used by the Medical Imaging Interaction Toolkit (MITK).

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •1•4•0•0•Updated Sep 13, 2024Sep 13, 2024

• Skeleton-Recall

  Public
  Skeleton Recall Loss for Connectivity Conserving and Resource Efficient Segmentation of Thin Tubular Structures

  Python

  •

  Apache License 2.0

  •5•70•4•0•Updated Sep 8, 2024Sep 8, 2024

• BraTPRO

  Public
  Python

  •

  Apache License 2.0

  •0•1•0•0•Updated Sep 2, 2024Sep 2, 2024

• MITK-Diffusion

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

  simulationdicomregistration+ 17segmentationmodellingbrainpeakdiffusion-mritractographydenoising+ 10

  C++

  •

  Other

  •15•79•1•0•Updated Aug 28, 2024Aug 28, 2024

• 2D3D-Privacy-Attacks-In-federated-Medical-Imaging

  Public
  Jupyter Notebook

  •

  Apache License 2.0

  •0•0•0•0•Updated Aug 26, 2024Aug 26, 2024

• MedVol

  Public
  Python

  •

  Apache License 2.0

  •0•14•0•0•Updated Aug 23, 2024Aug 23, 2024

• napari-nifti

  Public
  Python

  •

  Apache License 2.0

  •1•4•1•0•Updated Aug 19, 2024Aug 19, 2024

• batchgeneratorsv2

  Public
  Python

  •

  Apache License 2.0

  •4•15•0•1•Updated Aug 8, 2024Aug 8, 2024

• dynamic-network-architectures

  Public
  Python

  •

  Apache License 2.0

  •28•68•3•2•Updated Jul 31, 2024Jul 31, 2024

• mood

  Public
  Repository for the Medical Out-of-Distribution Analysis Challenge.

  Python

  •

  Apache License 2.0

  •6•61•2•3•Updated Jul 25, 2024Jul 25, 2024

• basic_unet_example

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

  Python

  •

  Apache License 2.0

  •38•140•5•1•Updated Jul 25, 2024Jul 25, 2024

• batchgenerators

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

  Jupyter Notebook

  •

  Apache License 2.0

  •221•1.1k•36•10•Updated Jul 12, 2024Jul 12, 2024

• napari-blosc2

  Public
  Python

  •

  Apache License 2.0

  •0•1•0•0•Updated Jul 11, 2024Jul 11, 2024

• 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 were used to develop and evaluate the performance of the proposed method.

  medical-imagingmedical-image-computing3d-object-detection+ 4pytorch-implementationretina-unetdetectionmedical

  Python

  •

  Apache License 2.0

  •97•553•25•1•Updated Jul 11, 2024Jul 11, 2024

• patchly

  Public
  A grid sampler for larger-than-memory N-dimensional images

  Python

  •

  Apache License 2.0

  •2•24•1•0•Updated Jul 4, 2024Jul 4, 2024

• radtract

  Public
  RadTract: enhanced tractometry with radiomics-based imaging biomarkers for improved predictive modelling.

  Python

  •0•9•0•0•Updated Jun 27, 2024Jun 27, 2024

• cOOpD

  Public
  Python

  •

  Apache License 2.0

  •1•8•1•0•Updated Jun 24, 2024Jun 24, 2024

• risk-adjusted-training-and-evaluation

  Public
  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •0•0•0•0•Updated Jun 24, 2024Jun 24, 2024

• medicaldetectiontoolkit

  Public
  The Medical Detection Toolkit contains 2D + 3D implementations of prevalent object detectors such as Mask R-CNN, Retina Net, Retina U-Net, as well as a training and inference framework focused on dealing with medical images.

  deep-neural-networksdeep-learningmedical-imaging+ 17segmentationobject-detectionmedical-image-computingsemantic-segmentation3d-modelsmedical-image-processingmask-rcnn+ 10

  Python

  •

  Apache License 2.0

  •297•1.3k•41•6•Updated Jun 17, 2024Jun 17, 2024

• radiomics-workflow-definition

  Public
  A consensus radiomics workflow definition (proposal) initiated bei the SPP 2177 Radiomics

  0•1•0•0•Updated Jun 11, 2024Jun 11, 2024