you could do it different ways, but we always start with the lh.sphere to
try to find the minimally distorting transformation.
Bruce
On Sun, 24 Aug 2008, Jan Kalkus wrote:
Thanks Bruce,
One more question, just to be sure, when using mris_register, the first time
I use:
mris_register \
-curv \
$SUBJECTS_DIR/bu_edited/surf/lh.sphere \
lh.monk_temp_wreg1.tif \
$SUBJECTS_DIR/bu_edited/surf/lh.sphere.reg
Is this correct? I shouldn't be using *h.sphere.reg (instead of *h.sphere)
for the input surface after the first round?
Thanks.
- Jan Kalkus
On Aug 24, 2008, at 10:15 PM, Bruce Fischl wrote:
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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