Hi Jan,
you should use the ?h.sphere.reg on the 2nd round. On our 1st round we
use a single subject ?h.sphere to avoid blurring the folding patterns too
much, then register all to that one, create the atlas from all the
subjects (with the sphere.reg), then recreate all the sphere.reg by
reregistering to the 2nd round atlas, then create a 3rd round atlas from
the new sphere.reg files.
let us know if you need more help.
Bruce
On Sun, 24 Aug 2008, Jan Kalkus wrote:
Hi everyone,
We're making a template to register some monkey brain surfaces to.
I've written a script based on instructions from the Surface Registration and
Templates page (
http://surfer.nmr.mgh.harvard.edu/fswiki/SurfaceRegAndTemplates ) on
FreeSurfer wiki.
I'm stuck at "Round 1" with the "mris_make_template" command. In the
first step we used:
mris_make_template \
lh sphere \
bu_edited bs_edited vi_edited \
lh.monk_temp_all.tif
As there were no *h.sphere.reg files yes, we used the *h.phere surfaces. My
question is, for the next "mris_make_template" should we use the same
(*h.sphere) surface or use the newly created *h.sphere.reg surfaces to create
the template?
mris_make_template \
lh sphere.reg \
bu_edited bs_edited vi_edited \
lh.monk_temp_all.tif
Has anyone else used this process to create their own templates/registered
surfaces? Does anyone have any suggestions? Thanks.
- Jan Kalkus
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