Re: [Freesurfer] Problems transforming T1 to talairach

2018-02-03 Thread Douglas Greve
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 generat

[Freesurfer] Problems transforming T1 to talairach

2018-02-02 Thread Helen Beaumont
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