Hello, I am new to MRtrix3. Could you please guide me to the processing of DTI
tractography?
I have used Andyâs Brain Book in the past: MRtrix Introduction: Overview of Diffusion Imaging â Andy's Brain Book 1.0 documentation
But it doesnât discuss group analysis, namely the need to use a common response function. That is discussed in this thread: Group analysis
Regarding group comparisons, my impression is that it is an evolving area and I have seen recommendations to multiply each connectome with the âmuâ value output by SIFT2 (which was not explicitly mentioned in the thread above, but is discussed in the threads below):
From reading this paper on the topic, I think the connectome comparisons are still valid even if you donât multiply each connectome with its mu proportionality coefficient, but the interpretation is different; without scaling by mu, the connectomes would represent relative proportions of white matter fibers within the subject, and scaling by mu is necessary to get them to represent an absolute measure of bundle capacity.
The B.A.T.M.A.N. tutorial is a great resource to learn mrtrix!
Hi! I did the BATMAN tutorial step-by-step (OSF) in parallel with the videos of Andrew Jahn (https://www.youtube.com/watch?v=A9j9gbSwU2k&list=PLIQIswOrUH68Zi9SVDAdcUExpq2i6A2eD&index=1&ab_channel=AndrewJahn). They are almost the same but for some steps (co-registration and sift) I followed Andrewâs recommendations.
I agree that the BATMAN tutorial is great. Just FYI itâs basically been updated this year in the form of a paper with 19-pages of supplemental info: Structural connectome construction using constrained spherical deconvolution in multi-shell diffusion-weighted magnetic resonance imaging | Nature Protocols