Beauchamp:FSStndSurf: Difference between revisions

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   /Volumes/data9/surfaces/fsaverage
   /Volumes/data9/surfaces/fsaverage
And converted to SUMA format for ease of access.
And converted to SUMA format for ease of access.
  cd /Volumes/data9/surfaces/fsaverage/SUMA
  cd /Volumes/data9/surfaces/fsaverage
afni -niml &
  ./@fs
  suma -spec fsaverage_both.spec -sv fsaverage_SurfVol+orig

Revision as of 14:23, 14 May 2009

When surfaces are created in FreeSurfer, the spherical version of the subject's surface is automatically aligned to the FreeSurface standard atlas brain. A new surface is created with the name lh.sphere.reg . This has the same number of nodes as the surface lh.sphere (and all of the other lh surfaces) but the nodes have been moved (morphed) to new positions so that each node on the subject's brain corresponds to a similar location on the atlas brain. If you view the .reg brain in SUMA, you will see swirling patterns that are a signature of the morphing process. These registered brains can be used to average fMRI data or other surfaces values across subjects, because each node corresponds to a similar brain location. Here is the README file from the FreeSurfer group average template. Beauchamp:FSAverageReadme The data files for the FreeSurfer template is found in

 /Applications/freesurfer/subjects/fsaverage/surf

or equivalent depending on your installation directory. A copy has been created in

 /Volumes/data9/surfaces/fsaverage

And converted to SUMA format for ease of access.

cd /Volumes/data9/surfaces/fsaverage
./@fs