2017-03-31 19:59 GMT+02:00 Bruce Fischl <fischl@nmr.mgh.harvard.edu>:

for volumes you can use either

mri_convert -at <transform>

or

mri_vol2vol.

For surfaces I think mris_transform should do the trick (and possibly mri_surf2surf, but I defer to Doug on this)

Bruce
On Fri, 31 Mar 2017, Paolo wrote:

Thank you for your answer.
I don't want the transformation to distort my image.
Is there a command to "apply" the transformation to both the files? Like:
$ <some_command> brainmask.mgz brainmask_registered.mgz
--apply_transf talairach.lta
$ <some_command> lh.white lh_registered.white
--apply_transf talairach.lta

I aim to do this an all subjects: will they be aligned between themselves
after the process?

Thanks

2017-03-31 15:59 GMT+02:00 Bruce Fischl <fischl@nmr.mgh.harvard.edu>:
Hi Paolo

if a linear transform is sufficient for your purposes you could
just use
the talairach.lta in the subjects/transforms dir. If you want
nonlinear you
could use talairach.m3z, but it will distort things (of course)

cheers
Bruce

On Fri, 31 Mar 2017, Paolo wrote:

>
> TO: freesurfer@nmr.mgh.harvard.edu
> SUBJECT: Registration of both the brain and the "surf" files
to the same tem
> plate.
> AIM: register e.g. brainmask.mgz and ?h.white for many
subjects all to the s
> ame template, so that I can then take slices of brainmask.mgz
and the superi
> mposed WM surface accross subjects and compare them, confident
that they are
> well alligned.
> WHAT I TRIED: used mri_robust_register to register all the
brainmask.mgz ima
> ges to a T1_1mm_template. I looked for the respective
"surface" template to
> register the surfaces, and maybe use mri_surf2surf, cannot
find a "surface"
> template that corresponds to the "T1" template. Ideally I
would like to use
> the same .lta transformation BOTH for the T1 image and the
surface. As I und
> erstand (?) they have a different mesh-transformation matrix.
> Best regards,
> Paolo
>
>
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