that shouldn't be the case. Run mris_info or mris_euler_number on your
input surface. Can you load the thickness as a surface overlay? It may be
that you regenerated surface  and not the htickness, or visa-versa. Which
surface are you using?

On Mon, 19 Dec 2016, Onur Uğurlu wrote:

>
> Hi Bruce,
>
>
> Thank you so much for the answer.
>
>
> I have used "read_surf.m" function and got the list of vertex locations and
> a list of faces. However, the list contains 107106 vertices whereas the
> lh.thickness.asc file contains 118603 vertices. How can I match the
> thickness values which are inlh.thickness.asc file with the vertices which
> were obtained from "read_surf.m" function?
>
>
> Sincerely yours,
>
> Onur
>
>
> ____________________________________________________________________________
> Gönderen: Bruce Fischl <fischl@nmr.mgh.harvard.edu> adına
> freesurfer-bounces@nmr.mgh.harvard.edu
> <freesurfer-bounces@nmr.mgh.harvard.edu>
> Gönderildi: 18 Aralık 2016 Pazar 17:54
> Kime: Freesurfer support list
> Konu: Re: [Freesurfer] Neighborhood of a vertex  
> Hi Onur
>
> for that you need a surface file. If you are using matlab you can load a
> surface file in with read_surf.m. The <vertex index> will then be an index
> into the surface (although note that you will need to add 1 to it since
> matlab is 1-based when you index into the vertex list). It will return a
> list of vertex locations and also a list of faces. The faces contain the
> (0-based) indices of the vertices in each triangle, which can be used to
> compile a list of neighbors.
>
> cheers
> Bruce
>
>
>
> On Sun, 18 Dec 2016, Onur Uğurlu wrote:
>
> >
> > Hi all,
> >
> >
> > I have a 'lh.thickness.asc' file which contains thickness values of each
> > vertex.
> >
> > The format of the file is following;
> >
> > <vertex index> <x> <y> <z> <thickness>
> >
> > However, x,y,z are not integer. What is the unit of the x,y,z values in
> the
> > file? I am trying to find all the neighborhood of any given vertex as
> x,y,z
> > -> x+1,y,z etc, can you suggest a method for this problem.
> >
> >
> > Sincerely yours,
> >
> > Onur
> >
> >
> >
>
>