HI,
I have few questions related to motion correction, registration and
preprocessing.
1. I have an fMRI experiment with 5 runs. How do you suggest to do motion
correction for this session? Is it neceessary to realign all the volumes
from all the runs to a single volume (as is suggested in AFNI)? or because
FSL has the ability to register every run to the structural scan this is
not any more necessary (in this way all the volumes are in the same space);
e.g. to realign run2,3,4,5 to run1 - as in AFNI
2. What can I do with the runs where the subject moved more than 1.5 mm.
Should I take them in consideraton? Is it a solution to ignore the
timepoints where the subjects moved from my analyses?
3. In one prestats processing I used 150 img files (Analyze Format) out of
180 to create the 4D input image . I end up with a cut brain in my
registration report. Can you explain me why as long as each img file
represents the whole brain scanned in one TR.
4.Can I reconvert the prestats output files back into ANALYZE 7.5 format
in order to use the preprocessed images as input for another fMRI software?
Thank you.
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