Dear Fresurfer users,
I would like to analyze group differences in cortical thickness in fresurfer by using as a mask a volumetric SPM activity image. Which command should be used for this purpose?
Thanks a lot and best wishes,
Sofia
Hi Sofia
you will need to use mri_vol2surf to sample the mask onto the surface. Do you have one for each subject? Or some type of average? We will need more details about what you are trying to do
cheers Bruce On Tue, 23 Feb 2016, Daniel Baena Pérez wrote:
Dear Fresurfer users,
I would like to analyze group differences in cortical thickness in fresurfer by using as a mask a volumetric SPM activity image. Which command should be used for this purpose?
Thanks a lot and best wishes,
Sofia
It depends on the space you used for your SPM analysis. If you used the mni152, then you should run recon-all on that, the use mri_vol2surf with --regheader, probably specifying --projfrac-max 0 1 .1 Then use mri_surf2surf to map it to fsaverage space, then use mri_binarize to binarize it at the threshold you want. Finally use the result of that as the --mask option to mri_glmfit. You will need to build your own monte carlo simulation https://surfer.nmr.mgh.harvard.edu/fswiki/BuildYourOwnMonteCarlo
doug
On 2/23/16 5:50 AM, Daniel Baena Pérez wrote:
Dear Fresurfer users,
I would like to analyze group differences in cortical thickness in fresurfer by using as a mask a volumetric SPM activity image. Which command should be used for this purpose?
Thanks a lot and best wishes,
Sofia
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Douglas Greve