Hi, are you talking about left-right flipping (ie header format
problems), or that the images are incorrectly registered, i.e. not
well-aligned to standard space?
On 16 Dec 2008, at 22:04, Nathan Dankner wrote:
> After running through fslvbm_2_template, I have encountered a
> problem of
> several scans flipping their orientation in the saggital and axial
> planes
> when I view them in the 4D file. It seems to be somewhat random in
> the
> sense that some scans that are flipped on one run through the
> template step
> may or may not be flipped on subsequent runs.
>
> I have been creating the NIFTI files via conversion from AFNI .BRIK
> and
> .HEAD files, and was told recently that the files should be
> converted from
> the default AFNI orientation (RAI) to RPI orientation. However,
> this did
> not resolve the problem, and in fact caused more scans to flip in
> varying
> degrees. Has anyone encountered this problem?
>
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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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