"When we collected the data, we scanned in both the PA and AP directions. The plan is to use the b0 from the AP direction as the reverse phase encoding direction for correction.
I saw the QSIprep documentation that the qsiprep automatically merges the files in the DWI directory. However, I did not see any mention of using the AP direction in the output report.
I still have a question about qsiprep. May I ask if you have any experience in this? I am trying to use a custom atlas to calculate connectivity. I have already resampled my atlas to the LPS+ and same FOV as described in the documentation. However, I don’t understand why and how to zero-out the sform. Is it necessary, and how do I do it? (I have checked the Neurostar and github.)