Hey FSL Team,
I have did several Diffusion measurements on one participant on two days.
I have 2 different questions
i) Should I combine all sessions via fslmerge and do then topup/eddy?
ii) Or should I do topup/eddy for each session separately?
iii) If I have to do it separately how can I compare the results later on ? Do I need to register all DWI's for example to a mean image? If yes what happens with the b-vecs file? Do I have to reorientate the b-matrix?
I was wondering after I checked some files which I combined via fslmerge because they differed from the original single ones. I guess due to some motion between the sessions the fslmerge command do a kind of interpolation?
So what would you suggest?
Thank you for any kind of help.