Hi Daiana

run mri_vol2vol --help. It has a bunch of examples and quite extensive help
(thank you Doug!)

Bruce

On Thu, 9 Nov 2017, Daya P wrote:

> Hi Bruce,
> Can you give me some example code? I am not sure where the talairach would go?
>
>
> On Thu, Nov 9, 2017 at 1:21 PM, Bruce Fischl <fischl@nmr.mgh.harvard.edu> wrote:
>       Hi Daiana
>
>       You should be able to use mri_vol2vol on the aparc+aseg.mgz and the
>       talairach.xfm in the subject's mri/transforms dir.
>
>       cheers
>       Bruce
>
>       On Thu, 9 Nov 2017, Daya P wrote:
>
>       > Hi All,
>       > I processed a bunch of subjects using recon-all, but now I would like to get labels
>       from
>       > aparc.a2009s.annot from each subject in MNI space in nii from, the problem is that the
>       annotation
>       > file (lh and rh) is in subject native space. I have a grey matter mask in MNI from
>       each subject and
>       > my goal is to have each label from aparc.a2009s.annot to fit that mask.
>       > How can I do this?
>       >
>       > Thank you,
>       > Daiana
>       >
>       >
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