thank you pt,
If I understand correctly, 3dCM will still create some minor misalignment on the anat and on the BOLD due to the differences in the calculation of the center of mass (mask for fMRI, without or with a different mask for the anat).
I have done something similar to what you proposed and these little misregistrations had impacted somehow the precision of fMRI co-registration (I have got a very poor SNR in the BOLD...)
In my case, deobliquing seems to create more problems than it solves (not so priceless in the end)
Also, I need to be able to send some atlases, back in the original space (the question that Daniel answer)
and for some random reason, it seems to not work well either =(
Given the number of problems it creates:
What would be the consequences of keeping the obliquity?
Is it that bad if I choose to do the analysis with the obliquity?
Thank you,
Happy Thanksgiving by the way =)
