On 07/12/2013 07:18 PM, François Tadel wrote:

Dear freesurfers,

I'm working on a function to import automatically the segmentation folder into a Brainstorm database. I have a few questions:

• Is there a way to read/get the position of the anterior and

posterior commissures (AC/PC)?

What do you mean by "position"? Do you mean the col, row, slice? For the AC, it should be possible since it is at TalXYZ=(0,0,0). Is there such a coordinate for the PC? We don't find the actual AC or PC.

• What file should I read to get the labels corresponding to the

aseg.mgz file?

$FREESURFER_HOME/ASegStatsLUT.txt

• Is there an easy way to generate surfaces for all the regions

defined in aseg.mgz?

Do you mean a surface for, say, hippocampus? In principle, it is possible, but the question is whether it is accurate.

• How do you create a mesh from a volume mask?

You can run mri_tesselate on it. Again, it might not be very accurate. It will look better if you run mris_smooth on it. doug

Thanks, Francois

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