if that is fsaverage, then mni and ras should be the same

On 8/30/16 9:37 PM, Dongnandi wrote:

Thanks a lot!

Just want to make sure that the “RAS”(FS cords?) and “MNI Talairach” is the MNI305 coords.

*发件人:*freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] *代表 *Douglas Greve *发送时间:*2016年8月30日21:21 *收件人:*freesurfer@nmr.mgh.harvard.edu *主题:*Re: [Freesurfer] Questions about surface coordanates

tksurfer always uses the ?h.orig coordinates. Also keep in mind that the vertex index is 0-based whereas matlab is 1-based. When you click on a point, you should see something like the following print out

selected vertex 123491 out of 163842 current -39.11 15.65 11.26 orig -55.67 -10.37 19.95 pial 0.00 0.00 0.00 white -55.76 -10.29 19.93

On 8/30/16 5:12 AM, Dongnandi wrote:

Dear Experts,

I tried to extract vertex coordinates information from
‘fsaverage/surf/lh.pial’ file using matlab function ‘read_surf’,
but I found that the coordinates returned by the function are
different from what I saw in tksurfer, here are the screenshots:

The vertex index starts from 0 in tksurfer, so I select the second
elements in matlab. Why is the result different from what has been
shown in tksurfer(also different in freeview)? Which one should I
report?

Is there any way to transform the surface coordinates to the
MNI152 space?

Thank you very much!

Dong




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