If you know the vertex number, then you can do something like

mri_volsynth --template $SUBJECTS_DIR/subject/surf/lh.thickness --pdf delta --delta-crsf vertexno 0 0 0 --o delta.mgz

mris_fwhm --smooth-only --fwhm 5 --i delta.mgz --subject subject --hemi lh --o delta.sm05.mgz

mri_binarize --i delta.sm05.mgz --min .000000001 --o delta.sm05.bin.mgz

tksurferfv subject lh inflated -fminmax .5 1 -ov delta.sm05.bin.mgz

This is a fairly convoluted method that basically creates a surface overlay with  a 1.0 in your vertex and 0 everywhere else (delta.mgz), then smooths that to distribute non-zero values around the vertex, then binarizes it.

On 05/02/2018 05:52 PM, Eryilmaz, H. Hamdi wrote:

Hi Doug,

They are in MNI but I can find out their vertex numbers if that would be easier.

Thanks! Hamdi

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*From:* freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Douglas N. Greve dgreve@mgh.harvard.edu *Sent:* Wednesday, May 2, 2018 5:42:20 PM *To:* freesurfer@nmr.mgh.harvard.edu *Subject:* Re: [Freesurfer] visualizing seeds on surface What coordinate system are the seed coordinates in? Do you know the vertex number on the surface?

On 05/02/2018 03:13 PM, Eryilmaz, H. Hamdi wrote:

...

Dear freeview experts,

Is it possible to display multiple seeds (i.e., as a small circle) on freeview surface view by specifying their coordinates? If there is no such feature, could you suggest an alternative way to visualize seeds?

Thanks in advance!

Best, Hamdi

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