Dynamic lung water magnetic resonance imaging during exercise stress

This code is for the manuscript (in sub): Seemann, F., et al. Dynamic lung water magnetic resonance imaging during exercise stress

This repository contains

• Matlab pipeline code for inline reconstruction and analysis
• Python processing for lung segmentation for analysis
• Image registration package

NHLBI TOOLBOX GADGETRON Installation

Repository with gadgetron image reconstruction code: https://github.com/NHLBI-MR/selfgated_noncartesian_reconstruction.git

% GADGETRON MATLAB

• Install application through matlab
• https://www.mathworks.com/matlabcentral/fileexchange/72715-gadgetron
• Make directory "+nhlbi" inside the +gadgetron class

Requires python packages

• numpy
• matplotlib
• torch
• torchvision
• scipy

pip install numpy matplotlib torch torchvision scipy the trained neural network is named best_lung_seg_model.pkl and is saved in the python folder