Hi Jesper,
I've discovered something of interest...
I mentioned that I used fslroi to crop the images prior to bias correcting
and bet-ing. I had asked if the differing image sizes would be an issue for
fslvbm, and Gwenaelle replied that it would not.
Since you seemed surprised that my subject volumes looked quite different
from each other in the GM_mod_merg file, I have run an experiment using one
subject only, a copy of that subject, and a version of that subject cropped differently.
The original and copy look identical after processing through the fslvbm
scripts, however the newly cropped volume is visibly different from the other 2!
Clearly the cropping introduces some alteration, and the widely different cropping
parameters for my subjects my seems have contributed to the visible differences. I
used the non-linear version of registration btw...would affine been a better choice?
What do you think of this?
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