Repositories list

• nnUNet

  Public
  segmentation

  Python

  •

  Apache License 2.0

  •1.8k•6.2k•237•17•Updated Jan 7, 2025Jan 7, 2025

• MedVol

  Public
  Python

  •

  Apache License 2.0

  •0•16•0•0•Updated Dec 29, 2024Dec 29, 2024

• batchgeneratorsv2

  Public
  Python

  •

  Apache License 2.0

  •7•16•0•2•Updated Dec 22, 2024Dec 22, 2024

• Foreground-and-Anonymization-Area-Segmentation

  Public
  0•0•0•0•Updated Dec 18, 2024Dec 18, 2024

• HD-BET

  Public
  MRI brain extraction tool

  Python

  •

  Apache License 2.0

  •66•298•23•7•Updated Dec 18, 2024Dec 18, 2024

• predictive_image_biomarker_analysis

  Public
  Code for the paper "Enhancing predictive imaging biomarker discovery through treatment effect analysis", which can be used for training and evaluating CATE estimation models for identifying predictive imaging biomarkers from pre-treatment images.

  Python

  •

  Apache License 2.0

  •0•0•0•0•Updated Dec 10, 2024Dec 10, 2024

• segmentation_failures_benchmark

  Public
  Python

  •

  Apache License 2.0

  •1•5•1•0•Updated Dec 10, 2024Dec 10, 2024

• ADetect

  Public
  "Automated detection of aortic dissections (AD) from CT scans using deep segmentation and optimized thresholding. Applicable in emergency clinical settings, for research purposes only."

  Python

  •

  Apache License 2.0

  •0•3•0•0•Updated Dec 9, 2024Dec 9, 2024

• MultiTalent

  Public
  Implemention of the Paper "MultiTalent: A Multi-Dataset Approach to Medical Image Segmentation"

  Python

  •

  Apache License 2.0

  •3•50•1•0•Updated Dec 3, 2024Dec 3, 2024

• iScience_GlioLymph_classification

  Public
  Python

  •

  Other

  •0•0•0•0•Updated Nov 30, 2024Nov 30, 2024

• MedSAMCodingPowerUnit

  Public
  Python

  •

  Apache License 2.0

  •0•0•0•0•Updated Nov 26, 2024Nov 26, 2024

• mario

  Public
  Python

  •

  Apache License 2.0

  •0•0•0•0•Updated Nov 22, 2024Nov 22, 2024

• napari-nifti

  Public
  Python

  •

  Apache License 2.0

  •1•4•1•0•Updated Nov 18, 2024Nov 18, 2024

• acvl_utils

  Public
  Python

  •3•8•2•2•Updated Nov 12, 2024Nov 12, 2024

• batchgenerators

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

  Jupyter Notebook

  •

  Apache License 2.0

  •223•1.1k•37•12•Updated Nov 7, 2024Nov 7, 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

  •2•9•1•0•Updated Nov 6, 2024Nov 6, 2024

• Skeleton-Recall

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

  Python

  •

  Apache License 2.0

  •5•82•4•0•Updated Nov 4, 2024Nov 4, 2024

• 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

  •29•365•13•0•Updated Nov 2, 2024Nov 2, 2024

• autopet-3-submission

  Public
  Python

  •

  Apache License 2.0

  •1•9•1•1•Updated Oct 29, 2024Oct 29, 2024

• miccai2024_midi-b-submission

  Public
  Python

  •

  Apache License 2.0

  •0•3•0•0•Updated Oct 20, 2024Oct 20, 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•6•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

• 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•86•3•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

• dynamic-network-architectures

  Public
  Python

  •

  Apache License 2.0

  •30•85•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•142•5•1•Updated Jul 25, 2024Jul 25, 2024