Hi,
I ran across a alignment issue as well between epi and anatomical. I don't have much experience with brain imaging, in fact this is one of my first projects, so I would totally appreciate some help. I ran the afni proc with the lpc+ZZ cost function and giant move and saw the following results:
[
drive.google.com]
After looking at the epi and anatomical raw data, I noticed that they have different orientations. Would that cause a problem? Otherwise, I'm not very sure about how to resolve this.
Thanks,
Daniel