Thank you Marco!
Horatio
On 08/03/2013, at 6:52 PM, Marko Wilke <[log in to unmask]> wrote:
> Hello Horatio,
>
> if you search spm's m-files for "Reset", you will find a promising hit in spm_image.m in about line 205. You can steal the code there and paste the following into Matlab's command window:
>
> % == start ==
>
> [P,sts] = spm_select([1 Inf], 'image','Images to reset orientation of');
> if ~sts, return; else P = cellstr(P); end
> spm_progress_bar('Init',numel(P),'Resetting orientations',...
> 'Images Complete');
> for i=1:numel(P)
> V = spm_vol(P{i});
> M = V.mat;
> vox = sqrt(sum(M(1:3,1:3).^2));
> if det(M(1:3,1:3))<0, vox(1) = -vox(1); end
> orig = (V.dim(1:3)+1)/2;
> off = -vox.*orig;
> M = [vox(1) 0 0 off(1)
> 0 vox(2) 0 off(2)
> 0 0 vox(3) off(3)
> 0 0 0 1];
> spm_get_space(P{i},M);
> spm_progress_bar('Set',i);
> end
> spm_progress_bar('Clear');
>
> % == end ==
>
> Alternatively, there is a tool within vbm8 that allows you to reset the origin to the center of the biggest cluster in the image, which usually is the head (Toolbox, vbm8, Extended tools, set origin using center of mass).
>
> Hope this helps,
> Marko
>
> Horatio Dyball wrote:
>> Dear Friends,
>>
>> Unfortunately the images I get from our scanner are in a very different
>> space to the SPM template space, and must have their origins reset
>> before processing. I would like to script this but have not been able to
>> find where in the spm catalog the process called by "Display>Reset..."
>> can be found. Could someone please tell me where this is, or better yet,
>> if you have a script could it be sent to me?
>>
>> With regards
>> Horatio
>
> --
> ____________________________________________________
> 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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