Hi Atena

mris_convert wiil convert any surface to ascii if the output file name. For example

mris_convert $SUBJECTS_DIR/$subject/surf/lh.pial \ $SUBJECTS_DIR/$subject/surf/lh.pial.asc

while convert the pial surface to ascii format. We don't generate mesh representations of the boundaries of the cerebellum or the thalamus, but you could with either mri_mc or mri_tessellate if you wanted. mri_tessellate is old enough that you would need to create a binary surfafce first then convert it, but mri_mc will do it directly:

mri_mc $SUBJECTS_DIR/$subject/mri/aseg.mgz 10 <output path>/lh.thalamus.asc

cheers Bruce

On Fri, 15 Feb 2019, Atena Rezaei wrote:

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Hi,

How  can I extract the mesh file of gray matter, white matter, Cerebellum and Thalamus from freesurfer in Ascii format? Thanks in advance!

BR, Atena