Dear Leo,
The -nosearch is to stop an *extensive* initial search of rotation angles.
It does not the optimisation method from finding non-zero rotations, and
you will find that it does in fact correct for rotations.
The -paddingsize is to make sure that end slices are not lost due to small,
half-voxel shifts of the FOV. This just copies the intensities from the
nearest end slice into any areas which have fallen outside the original FOV
by up to 1 voxel.
All the best,
Mark
On 2 Apr 2012, at 23:27, Yiou Li wrote:
> Dear FSL experts,
>
> Could you please advise the reason of using the -nosearch and -paddingsize 1 in the flirt command in eddy_correct?
>
> It seems to me that -nosearch constrains (or turn off?) the rotation in registration transformation -- is this because rotation transfomation could introduce artifacts in estimation of diffusion parameters?
>
> Thanks in advance!
> Leo
>
>
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