Code & Data
Open-source code and datasets from MINNE Lab. We aim to publish data and code from our projects whenever possible.
Source code
minnelab
The lab's GitHub organisation. Research platforms, publication code, teaching material, and federated-learning infrastructure live here.
Open on GitHub →Research platforms
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Medical AI platform
MAIA
Kubernetes-based platform for collaborative medical-AI research — data preparation, training, active learning, deployment, and evaluation in one environment.
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Federated learning
MONet-Bundle
MONAI bundle integrating nnU-Net for clinical federated learning, active learning, and PACS integration (MICCAI 2025 DeCaF).
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Infrastructure
NVFlare-Dashboard
NVIDIA FLARE dashboard for provisioning and monitoring federated-learning experiments across institutions.
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Detection framework
nnDetection
Self-configuring framework for 3D medical-object detection. Our fork with lab-specific integrations.
Code accompanying publications
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Scientific Reports · 2025
DBM_with_DL
Decomposing the effect of normal aging and Alzheimer's disease in brain morphological changes via learned aging templates.
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Medical Image Analysis · 2025
InBrainSyn
Synthesising individualised aging brains in health and disease with generative models and parallel transport.
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ISBI · 2025
longitudinal-rigid-registration
Learning accurate rigid registration for longitudinal brain MRI from synthetic data.
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Tractography
rCOMMIT
Randomly COMMITting — iterative convex optimisation for microstructure-informed tractography.
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ADSMI @ MICCAI · 2024
DA_nnUNet
Unsupervised domain adaptation for pediatric brain-tumor segmentation.
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HBM · 2023
Synthetic-Brain-Aging
Fast 3D image generation for healthy brain aging using diffeomorphic registration.
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Breast ultrasound
DynamicBUS
Diffusion-model-based breast ultrasound video generation for diagnosis.
Teaching & workshops
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Workshop · 2025
MAIA-AIDA-TechDays-Workshop
Slides, notebooks, and setup material for the MAIA tutorial at AIDA Technical Days, September 2025.
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Workshop
Computer-Science-Workshop
Material for the Computer Science Workshop held January 2024.
For a full list — including internal tools and configuration repositories — see the minnelab organisation on GitHub.
Rodrigo Moreno — personal repositories
rodrigomorenokth
Earlier reference implementations published directly under Rodrigo Moreno's personal GitHub account.
Open on GitHub →-
Vascular imaging
RPD
Ring Pattern Detector — reference implementation of the vesselness filter for tubular-structure extraction.
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Diffusion MRI
GMIL
Generalised Mean Intercept Length Tensor — anisotropy estimation for orientation-distribution data.
Datasets
Synthetic Healthy Brain Aging MRIs with Segmentation Masks
A collection of 6,448 synthetic T1-weighted MRI scans simulating longitudinal brain aging, each with a corresponding segmentation mask. Generated using deep generative models to support research in neuroimaging and healthy aging.
Jingru Fu, Antonios Tzortzakakis, José Barroso, Eric Westman, Daniel Ferreira, Rodrigo Moreno (2023). Synthetic healthy brain aging MRIs with segmentation masks. doi:10.23698/aida/synthetic/shbamri