Dear SPMers, John,
I read this thread concerning differences between SPM2 and SPM5 for realign
and normalize fMRI data, and I still have some misunderstandings:
With SPM2, following realignment step, *.mat files were attached to
slice-timed (a*.img/hdr) images, so that , in the normalization step, we
could apply normalization parameters to a*.img (and not to ra*.img ,
minimizing the number of reslincing steps).
With SPM5 (using *.nii files), there is no more *.mat files created
So my question is:
-Do we have to apply normalization parameters to ra*.nii images if we want
to keep the realignment parameters, or can we still apply these
normalization parameters to the a*.nii images?
If it is the case, then another point raises: How can we be sure that a
a*.nii dataset has previously been realigned? the previous versions of SPM
had a very important feature preventing this: never modify a file without
adding a prefix in the name.
Thanks for your help