Why do you have your activation in a .w file? If you can save it as
.mgh, then things get a lot easier. You can convert it to mgh using
mri_surf2surf. You'll need to convert the thickness to mgh with
mri_convert lh.thickness lh.thickness.mgh. Then load the two mgh files
into matlab, eg,
thick = MRIread('lh.thickness.mgh');
fmri = MRIread('yourfmri.mgh');
thick and fmri will be structures where the .vol element is the data you
want
On 09/08/2014 10:00 AM, lorenzo pasquini wrote:
> Dear Freesurfers,
>
> I am currently investigating the relationship between functional
> activation and cortical thickness at a within-subject vertex-based
> level. For this purpose I have mapped my activation on the vertex
> surface in the same subject. As you can see from the attached
> screenshot, I am able to visualize for the same vertex (e.g.
> coordinates vertex normal [0.97 -0.17 -0.14], curvature -0.190746) the
> value of the individual activation map (3.002379 on TkSurfer) and the
> individual cortical thickness value (2.61282 on FreeView).
>
> What I need, is for every vertex in my surface the activation value
> and the correspondent cortical thickness value to be able to compute a
> vertex-based individual correlation of both modalities.
> How ca I extract this information from my data? The activation map is
> saved in .w (paint format)... is it possible to extract such a matrix
> by saving my data in an other format? I have been trying
> read_annotation and other matlab commands as read_surf but could not
> access a matrix of vertex specific thickness/activation values. Is
> there a more elegant way to compute an individual correlation/general
> linear model in freesurfer (please note that the analysis in WITHIN a
> subject)? Or should I use softwares as SurfStat
> (http://www.math.mcgill.ca/keith/surfstat/)?
>
> Any help would be very appreciated, thanks,
>
> Lorenzo
>
>
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