MIC-DKFZ

basic_unet_example

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

batchgenerators

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

HD-BET

MRI brain extraction tool

medicaldetectiontoolkit

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.

MedNeXt

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

nnDetection

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.

nnInteractive

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.

nnUNet

TractSeg

Automatic White Matter Bundle Segmentation

trixi

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 your tastes.

MIC-DKFZ/batchgenerators

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

MIC-DKFZ/MedNeXt

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

MIC-DKFZ/HD-BET

MRI brain extraction tool

MIC-DKFZ/basic_unet_example

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

MIC-DKFZ/MITK-Diffusion

MITK Diffusion - Official part of the Medical Imaging Interaction Toolkit

MIC-DKFZ/niicat

This is a tool to quickly preview nifti images on the terminal

MIC-DKFZ/mood

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

MIC-DKFZ/image_classification

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

MIC-DKFZ/ToothSeg

MIC-DKFZ/MedVol

MIC-DKFZ/autopet-3-submission

MIC-DKFZ/segmentation_failures_benchmark

MIC-DKFZ/MurineAirwaySegmentation

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

MIC-DKFZ/acvl_utils

MIC-DKFZ/Longitudinal-Difference-Weighting

Longitudinal Segmentation of MS Lesions via Temporal Difference Weighting

MIC-DKFZ/miccai2024_autopet3_datacentric

MIC-DKFZ/agent-sam

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

MIC-DKFZ/ADetect

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

MIC-DKFZ/Foreground-and-Anonymization-Area-Segmentation

MIC-DKFZ/MatchPoint

MatchPoint is a translational image registration framework written in C++. It offers a standardized interface to utilize several registration algorithm resources (like ITK, plastimatch, elastix) easily in a host application.

MIC-DKFZ/napari-nifti

MIC-DKFZ/ssl3d

MIC-DKFZ/MedSAMCodingPowerUnit

MIC-DKFZ/napari-camera

MIC-DKFZ/napari-labels

MIC-DKFZ/predictive_image_biomarker_analysis

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.

MIC-DKFZ/2D3D-Privacy-Attacks-In-federated-Medical-Imaging

MIC-DKFZ/iScience_GlioLymph_classification

MIC-DKFZ/mario

MIC-DKFZ/miccai2024_cl-detection2024