Re: [Freesurfer] trying to understand mri_surf2surf

It is fairly standard, at least in the programs I write. It sometimes appears with a single dash (-help) doug

On 09/03/2013 10:59 AM, David Romano wrote:

Thanks, Doug; I'd only gone through the information I could find online and didn't see there was a --help flag available. I'll try that now. And out of curiosity in case something similar happens with other freesurfer commands, is the --help flag standard in freesurfer?

Thanks again, David

On Tue, Sep 3, 2013 at 7:32 AM, Douglas N Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu> wrote:

Hi David, did you check the help within mri_surf2surf? Run
mri_surf2surf
--help. I think it has an example of what you want to do.
doug

On 08/30/2013 06:57 PM, David Romano wrote:
> Hi everyone,
>
> In an earlier post, I had asked how to transform the white
surface of
> one subject to the white surface of another subject, and Bruce
Fischl
> suggested mri_surf2surf should be able to do this.   After looking
> over the website material related to mri_surf2surf, I find I'm not
> sure how mri_surf2surf works, and so am still not sure how to
proceed.
>
> As a starting point, suppose we have the file lh.sphere.reg for each
> of two subjects, A and B, and consider, say, vertex 1 of subject A.
> Here is what I understand: This vertex maps to a point P on the
sphere
> that has coordinates given in subjects A's lh.sphere.reg file.  The
> point P is contained in some closed triangle T from B's mesh, as
that
> mesh appears in B's lh.sphere.reg file.  This triangle is formed
from
> three points on the sphere that correspond to three vertices that
> appear in B's lh.white file.   These three vertices thus form a
> triangle T' in B's native volume space, and thus the point P
contained
> in T corresponds to a point P' in B's native volume space that is
> contained in T'.
>
> So here is my question:  How would I used mri_surf2surf to find the
> coordinates (in B's native volume space) of the point P'?
>
> Thanks in advance for you help in clarifying this for me.
>
> Best regards,
> David Romano
>
>
>
>
>
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--
Douglas N. Greve, Ph.D.
MGH-NMR Center
greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>
Phone Number: 617-724-2358 <tel:617-724-2358>
Fax: 617-726-7422 <tel:617-726-7422>

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