Hi - yes, this is all correct.
Cheers.
On 2 Jun 2009, at 14:54, Emma Liang wrote:
> Thanks Mark! Sorry to have not noticed that.
>
> But I don't understand: Is the second line of the highres2standard(a
> small clip attached) supposed to be the MNI with skull as well?
> There is a standard head imaging in the same folder. My result looks
> like all the red contour in brain goes out to the skull. Is it normal?
>
> Best wishes,
> Emma
>
> On Tue, Jun 2, 2009 at 8:10 AM, Mark Jenkinson <[log in to unmask]>
> wrote:
> Hi,
>
> This is normal. FEAT looks for the pre-BET images in the same
> directory
> and uses them with FNIRT, as it is better for the non-linear
> registration.
> The linear registration with FLIRT is still better with the post-BET
> images.
> So you have done everything correctly and this is just how FEAT works.
> It is detailed in the bubble help and the documentation for FEAT.
>
> All the best,
> Mark
>
>
>
> On 1 Jun 2009, at 16:22, Emma Liang wrote:
>
> Dear FSLers,
>
> I use all the same imagings and setting to do linear and nonlinear
> registration respectively. But the nonlinear
> highres2standard(attached) shows the skull that had been removed by
> BET. Could anyone tell me why? Thanks a lot!
>
> Best regards,
> Emma
>
> <highres2standard_non.jpg>
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Stephen M. Smith, Professor of Biomedical Engineering
Associate Director, Oxford University FMRIB Centre
FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK
+44 (0) 1865 222726 (fax 222717)
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