I just want to pick up on this as there is another fundamental difference
in preprocessing as outlined in the SPM5 manual, compared to SPM2.
From what I understand, it was recommended by the authours that for SPM2,
the fMRI time series is realigned only and not resliced: the realignment
parameters being saved in the .mat file for use in the next stage, spatial
normalisation, (effecting resampling and reslicing in a single step).
The recommnded preprocessing procedure for SPM5 (according to the example
data sets in section VI of the manual) is to realign *and* reslice the
fMRI data prior to spatial normalisation. Is there a resaon for adopting
this approach in SPM5? Would it be acceptable to simply estimate the
realignment parameters, as they would (presumably) be considered during
the spatial normalisation procedure? This would save a lot disk space used
for writing out rr*.img files.
Regards - Mike
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