Ethan,
although I am always hesitant to answer questions addressed to experts
;) here's my 2 cents: I agree that what you see is likely an effect of
image inhomogeneity. The way to deal with that is to play with the
inhomogeneity correction options in unified segmentation, which I assume
is what you used to normalize the image in the first place (otherwise I
would recommend doing this). This may or may not work in your case, as
the FOV seems pretty tight and the intensity gradient pretty steep, but
it is worth a try.
For performing manual reorientation, you can also use SPM, by displaying
the image and playing with pitch, roll, and yaw, and then applying the
changes to the image. This should be described in the manual at some
point. Note that, for automated alignment, you can also use
coregistration to a template (search the list's archive for several
topics on this).
Cheers,
Marko
Ethan wrote:
> Dear experts:
>
> I've encountered a problem when trying to normalize a T1 data to the
> template.
> As you can see in the left figure, the normalized image seems to
> be stretched along the x axis.
> It seems that this is caused by signal loss of the temporal regions in the
> original image (right figure).
> Do you have any solutions for this kind of problems?
> I don't know how to perform manual registrations. Would you please
> recommend some software or tutorials?
>
> Thanks!!
>
> Ethan
>
--
____________________________________________________
PD Dr. med. Marko Wilke
Facharzt für Kinder- und Jugendmedizin
Leiter, Experimentelle Pädiatrische Neurobildgebung
Universitäts-Kinderklinik
Abt. III (Neuropädiatrie)
Marko Wilke, MD, PhD
Pediatrician
Head, Experimental Pediatric Neuroimaging
University Children's Hospital
Dept. III (Pediatric Neurology)
Hoppe-Seyler-Str. 1
D - 72076 Tübingen, Germany
Tel. +49 7071 29-83416
Fax +49 7071 29-5473
[log in to unmask]
http://www.medizin.uni-tuebingen.de/kinder/epn/
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