Re: [Freesurfer] Re: Transform orig.mgz image to native space

try:

mri_convert orig.mgz -rl rawavg.mgz orig.nii

On Tue, 2009-05-26 at 18:10 -0700, Flavio Seixas wrote:

The native data has (0.449219, 0.449219, 0.45) mm size and (512, 512, 356) voxels. The orig.mgz has (256, 256, 256) voxels. I would like to transform orig.mgz back to native data coordinates.

Best Regards, Flavio.

--- On Tue, 5/26/09, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:

    From: Bruce Fischl <fischl@nmr.mgh.harvard.edu>
    Subject: Re: Transform orig.mgz image to native space
    To: "Flavio Seixas" <flseixas@yahoo.com.br>
    Cc: freesurfer@nmr.mgh.harvard.edu, tosa@nmr.mgh.harvard.edu,
    greve@nmr.mgh.harvard.edu
    Date: Tuesday, May 26, 2009, 5:56 PM

    the data should already be in the native space, not talairach.

    cheers,
    Bruce

    On Tue, 26 May 2009, Flavio Seixas wrote:

    > Hi Hii,
    >
    > I'm beginner Freesurfer user. I segmented brain subcortical
    structures using Freesurfer (recon-all). The process was
    concluded ok. How could I convert aseg.mgz and orig.mgz back
    to native space? I've tried "mri_convert orig.mgz orig.nii -ot
    nii --apply_inverse_transform transforms/talairach.xfm", but
    didn't work. Anyone could help me? I would appreciate any
    suggestion.
    >
    > Thank you,
    > Flávio.
    >
    >
    >
    >
    >
    >

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