SimpleITK tools for use at the command line

Dashboard for ISMRM RRSG 2020 Challenge, powered by Plotly-Dash, deployed to Heroku via GH-Actions.

Code and Datasets for the paper "Brain atlas guided attention u-net for white matter hyperintensity segmentation", published on AMIA 2021 Informatics Summit.

Find body parts in 3D MRI images.

Implementation of a 2D spatio-temporal CNN for artefacts-reduction in accelerated 2D cardiac cine MRI.

Official PyTorch implementaiton of the paper "3D Instance Segmentation Framework for Cerebral Microbleeds using 3D Multi-Resolution R-CNN."

semantic segmentation for magnetic resonance imaging

Reconstruction of medical image data using DICOM format input data

This is the repository that accompanies the manuscript "Deep Learning of MRI Contrast Enhancement for Mapping Cerebral Blood Volume from Single-Modal Non-Contrast Scans of Aging and Alzheimer's Disease Brains" accepted for publication in Frontiers in Aging Neuroscience, section Neurocognitive Aging and Behavior (July-18-2022).

Code for the MIDL 2019 paper Balsiger et al., On the Spatial and Temporal Influence for the Reconstruction of Magnetic Resonance Fingerprinting

Model-based super-resolution of medical images in PyTorch.

REACT: Receptor-Enriched Analysis of functional Connectivity by Targets

dMRIPrep is a robust and easy-to-use pipeline for preprocessing of diverse dMRI data. The transparent workflow dispenses of manual intervention, thereby ensuring the reproducibility of the results.

medigan - A Python Library of Pretrained Generative Models for Medical Image Synthesis

Official implementation of the Fourier-constrained diffusion bridges (FDB) model for MRI reconstruction

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

Code to reproduce the results from the thesis: "Compressed Sensing - Theoretical Foundations & Application in Magnetic Resonance Imaging"

Magnetic Field Coil Generator for Python, ported from CoilGen

A PyTorch-powered differentiable image reconstruction/optimization toolbox