Web Reference: Diffusion MRI (dMRI) provides invaluable information for the study of tissue microstructure and brain connectivity, but suffers from a range of imaging artifacts that greatly challenge the analysis of results and their interpretability if not appropriately accounted for. This notebook is the first in a series on Diffusion Analysis using MRtrix. In this part, we will focus on loading, viewing and preprocessing steps essential for preparing diffusion MRI data for further analysis. The preprocessing workflow is dynamically built based on data provided as a BIDS input. Separate dMRI scans can be grouped and processed together depending on their acquisition parameters and user-supplied options. Image processing can include denoising, Gibbs unringing, head motion, eddy current and distortion correction, b = 0 reference image cre...
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