Hello,
I am trying to create a DWI pipeline to mirror the linked [flowchart] (7.1. FATCAT Commands — AFNI, SUMA and FATCAT: v24.3.06) with the end goal of computing a SC matrix for 200 Schaefer parcels and am looking for some guidance.
I began by running TORTOISEProcess (V4) to complete the preprocessing, motion correction, filtering, registration, etc. My output is a nifti file and I would like to move to the DT estimation but am unsure of how to run 3dDWItoDT. How do I obtain the 1D file of the gradient vectors, and how do I pass in my processed nifti?
Thanks in advance!