Hi,
You are doing nothing wrong. The new version of vertex analysis (as of FSL 5.0) uses volumetric outputs for vertex analysis. See the wiki for more information about this (which also shows how to do an "old style" analysis if you really, really want it, but we don't recommend it anymore).
All the best,
Mark
On 16 May 2014, at 09:48, Stefanie K <[log in to unmask]>
wrote:
> Hi,
> I'm sorry to bother you all, but when I am performing a vertex analysis I don't get a .vtk file in the shape_analysis order. Do you have any clue what I did wrong?
>
> What I did so far:
> I would like to perform a shape analysis in the left caudate between 12 subjects which performed good or bad in a task. Therefore I set up the following design matrix:
> 1)select highter level/non-timeseries design
> 2) 12 = number of input. (4 bad ans 8 good performers)
> 3) EV's = 1, Contrasts = 1, FTests=1
> 4) titel bad_good
> Matrix:
> Group EV1
> 1 1
> 1 1
> 1 1
> 1 1
> 1 -1
> 1 -1
> 1 -1
> 1 -1
> 1 -1
> 1 -1
> 1 -1
> 1 -1
>
> Afterwards I typed in the command:
> first_utils --vertexAnalysis --usebvars -i L_Caud_all.bvars -d bad_good.mat -o shape_analysis/bad_good_LCaud --useReconMNI
>
> I tried it for both, naive space and MNI. But the only files I can find in the shape_analysis folder are bad_good_LCaud.nii.gz and
> bad_good_LCaud_mask.nii.gz but no .vtk file.
> I'm happy for any suggestion
> Many thanks!!
> Stefanie
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