Re: [Freesurfer] MNI coordinates of all the vertices of fsaverage

ps. you can always just load the xyz in the label into matlab and compute the centroid

On 8/1/16 10:23 AM, Sabin Khadka wrote:

Anyone?

Cheers, Sabin Khadka

On Fri, Jul 29, 2016 at 2:47 PM, Sabin Khadka <mr.sabinkhadka@gmail.com mailto:mr.sabinkhadka@gmail.com> wrote:

Hi Doug, I tried to pick up from the thread below to get MNI
coordinates of each destrieux parcellation region.


https://mail.nmr.mgh.harvard.edu/pipermail//freesurfer/2013-July/032037.html

I created label files from
mri_annotation2label --subject fsaverage --hemi lh(/rh)
--annotation aparc.a2009s --outdir label_destrieux   # which works
fine

And I tried to get the coordinates of each labels using

mri_surfcluster --in ~/subjects/fsaverage/surf/lh.thickness
--clabel <label file> --sum <output file> --centroid --thmin 0
--hemi lh --subject fsaverage

But, all left labels would produce the same coordinates and so
does right labels. (I've attached few example files here with).
Also, it says TalX, TalY, TalZ are these coordinates in MNI or
Talairach?

Thanks for help.