Try adding -oc 0 0 0 to the mri_convert command line
On 2/2/18 7:27 AM, Helen Beaumont wrote:
> I am using the command
> mri_convert -at transforms/talairach.xfm brain.mgz brain_in_tal.nii.gz
>
> to convert a native-space skull-stripped T1 image to talairach space. I used
> recon-all to generate the transform matrix, and the segmentation and
> everything look good. But the T1_in_talairach image is not good - the brains
> are ending up different sizes, and frequently have the posterior chopped off.
> Please what am I doing wrong? Should I be applying the inverse of the
> transform?
>
> Helen Beaumont PhD
> University of Manchester
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