Hi,
for the segmentation, you are not specifying a whole-brain target, but
tissue priors. You are of course correct that these should correspond to
the brain you want to un-normalize. More information on where these
priors come from can be obtained from the help text in new segment
(that's where I just found it :) This should get you started.
Cheers,
Marko
Fred Sampedro wrote:
> Thanks a lot Marko,
>
> But it is possible to specify a different template in the segment module
> (that is, tell that segments using the MNI305 T1 template that I have
> instead of the default (which I guess is MNI152?)
>
> Thanks again,
> Fred
>
>
> On Fri, Jan 24, 2014 at 1:49 PM, Marko Wilke
> <[log in to unmask]
> <mailto:[log in to unmask]>> wrote:
>
> Hello Fred,
>
> assuming you are using either spm8 or 12b, I think the easiest is to
> use either new segment or the vbm-toolbox, both of which allow to
> directly write out inverse deformation fields. You can then apply
> these to the normalized brain pretty easily.
>
> Cheers,
> Marko
>
>
> Fred Sampedro wrote:
>
> Dear SPM experts,
>
> I am interested to unnormalize a MNI305 T1 template to a
> specific native
> space T1 image. I have read and tried several options, which none of
> them worked:
>
> 1- Simply use Normalize using as a template the native space T1 and
> source the MNI305. --> This make a disaster.
>
> 2- Normalize as usual the native space T1 to the MNI305 image (this
> worked well), and then figure out with the _sn.mat file how to
> invert
> the transfomation to unnormalize the MNI305 image. I used the
> Deformation utility in SPM and chose the Inverse composition,
> and within
> that I chose the Imported _sn.mat, specified the parameter file (the
> actual _sn.mat), and left the voxel sizes and bouding box at
> NaN's. As
> the "Image to base inverse on" I chose the native space T1
> image. This
> also produced a disaster output image.
>
> I am doing something wrong? How do you suggest I could
> accomplish this?
>
> Thanks a lot in advance,
> Fred Sampedro
>
>
> --
> ______________________________________________________
> 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 <tel:%2B49%207071%2029-83416>
> Fax +49 7071 29-5473 <tel:%2B49%207071%2029-5473>
> [log in to unmask]
> <mailto:[log in to unmask]>
>
> http://www.medizin.uni-__tuebingen.de/kinder/epn/
> <http://www.medizin.uni-tuebingen.de/kinder/epn/>
> ______________________________________________________
>
>
--
____________________________________________________
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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