nnunet

[ICLR 2024 oral; top 1.2%] Supervised Pre-Trained 3D Models for Medical Image Analysis (9,262 CT volumes + 25 annotated classes)

MOOSE (Multi-organ objective segmentation) a data-centric AI solution that generates multilabel organ segmentations to facilitate systemic TB whole-person research.The pipeline is based on nn-UNet and has the capability to segment 120 unique tissue classes from a whole-body 18F-FDG PET/CT image.

3D Slicer extension for fully-automatic segmentation of CT and CBCT dental volumes.

Segmentation deep learning ALgorithm based on MONai toolbox: single and multi-label segmentation software developed by QIMP team-Vienna.

[CVPR 2025] nnWNet: Rethinking the Use of Transformers in Biomedical Image Segmentation and Calling for a Unified Evaluation Benchmark

3D Slicer nnUNet integration to streamline usage for nnUNet based AI extensions.

MIST: A simple and scalable end-to-end framework for 3D medical imaging segmentation.

cardiAc ultrasound Segmentation & Color-dopplEr dealiasiNg Toolbox (ASCENT)

LION: Lesion Segmentation. Simplified.

Fully automated 3D perivascular space (PVS) segmentation tool for T1w and T2w brain MRI.

Playing with SimpleITK and nnU-Net to process data from the CHAOS challenge on Google Colab.

Official repository for "Pre- to Post-Contrast Breast MRI Synthesis for Enhanced Tumour Segmentation"

nnUNet benchmarks for The University of California San Francisco Brain Metastases Stereotactic Radiosurgery (UCSF-BMSR) dataset.

This is a repository hosting all models detailed in the article Brain tumour segmentation with incomplete imaging data.

Automated cyst segmentation and counting pipeline for polycystic kidney disease µCT scans, using nnUNet and distance-transform peak detection with genetic algorithm parameter optimization.

Efficient Deep Learning-based Forward Solvers for Brain Tumor Growth Models

nnUNet benchmarks for The University of California San Francisco Adult Longitudinal Post-Treatment Diffuse Glioma (UCSF-ALPTDG) dataset.

This project uses nnU-Net to automatically segment carotid arteries from 2D ultrasound images.

Official repository of "Simulating Dynamic Tumor Contrast Enhancement in Breast MRI using Conditional Generative Adversarial Networks"