which MNI coordinate system? We don't know anything about surfstat. Can you tell us what you want to do without using the surfstat commands? doug

xiaoning wu wrote:

Hi all,

Recently I have a problem about coordinate of freesurfer. I have reprocessed the MRI data to get the cortical thickness and then I want to get the indexes, coordinate and cortical thickness of a region of interest(ROI). I have use the Surfstat toolbox of matlab to process the data.Now I want to use the function SurfStatROI ( function maskROI = SurfStatROI( centre, radius, surf ) ) to get the ROI, however, I have known the MNI coordinates (x,y,z) only .I want to convert this MNI coordinates to the freesurfer coordinates which can be used by SurfStatROI.center. That is ,if I use the function SurfStatReadSurf to read surf files (surf=SurfStatReadSurf(..)) to get the variable surf, then I can get surf.coord(:,index) by a index. How can the surf.coord() corresponding to the MNI coordinate systems or Talairach systems.

I have seen the website of Freesurfer coordinate systems (http://surfer.nmr.mgh.harvard.edu/fswiki/CoordinateSystems) but I can not solve my problem. Looking forward to your help sincerely.

Your sincerely!

Xiaoning Wu

Mar 20,2012

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