Hello there,
 
We have a bunch of files that had freesurfer run already, simply using the command "recon-all -s subjid -all", in order to get the cortical thickness in fs average space, should we have to re-run all of them again using "recon-all -s subjid -qcache -measure thickness", or we may apply some transformation reported already to transform the thickness from subject space to fs average space ? Does anyone have any suggestion on how to do that? Thanks.
 
Aize

> Subject: Re: Cortical thickness in the template space
> From: nicks@nmr.mgh.harvard.edu
> To: caoaize@hotmail.com
> CC: freesurfer@nmr.mgh.harvard.edu
> Date: Tue, 8 Mar 2011 16:50:41 -0500
>
> Aize,
>
> run:
>
> recon-all -s subjid -qcache -measure thickness
>
> and this will create files in the /surf dir which sample the thickness
> data at different smoothing levels onto the fsaverage subject space.
>
> n.
>
> On Wed, 2011-03-09 at 05:46 +0800, caoaize wrote:
> >
> > Hello,
> >
> > We try to look at the two group difference of cortical thickness, but
> > I need the lh(or rh).thickness file, which reported in template space
> > (FS average space), but after run recon-all -all, what I have is only
> > lh.thickness, or rh.thickness, which is in subject's space. Would
> > someone point me where or how I can get them? Thanks.
> >
> > Aize
>
>
>
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