Hi
to answer the second question: if you stack the subvolumes into one data
set by introducing the gaps you should be able to simply use that data
(with the gaps) within Feat - just make sure that you're using intensity
based thresholding and switch off bet. Voxels that sre within the gap
will simply be thresholded and not enter the estimation.
Regards
Christian
Pasi Tuunanen wrote:
>
> Hello,
>
> Sub-volumes were acquired simultaneously. Physical gap between subsets is
> 3.0cm and both of them are tilted. I had 2mm gap between slices, so I could
> include 4 padding slices between sets with the same strategy. Tilt angle is
> the same for each set but they may not be exactly on top of each other,
> though. The remaining question is, how do I get the best alignment-result?
> Padding to a large volume or treating subsets separately?
>
> After mcflirt, I can eventually squeeze them back into one volume with five
> slices and give them as input for FEAT, can't I?
--
Christian F. Beckmann
Address: Oxford University Centre for Functional
Magnetic Resonance Imaging of the Brain,
John Radcliffe Hospital, Headington, Oxford OX3 9DU, UK
Email: [log in to unmask] http://www.fmrib.ox.ac.uk/~beckmann/
Phone: +44(0)1865 222713 Fax: +44(0)1865 222717 Mob: +44(0)7980
691852
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