I have a very minor question about the naming scheme for tracula output.

I have the folders anat and anatorig in the dlabel folder. Am I right that:

anatorig is the T1 image in "freesurfer space" (256 x 256 x 256; LIA)
anat is a rotated version of the T1 image in freesurfer space that lines up with the standard orientation used by FSL (256 x 256 x 256; LAS)

So neither is actually in the same space as the *original* file that was passed to recon-all (176 x 240 x 256; LAS)?

I ran mri_label2vol with dlabel/anat/anat_brain_mask.nii.gz as the --temp argument and the labels didn't line up nicely. They did line up with anatorig though. Is this what you'd expect?

Kirstie Whitaker, PhD
Research Associate

Department of Psychiatry
University of Cambridge

Mailing Address
Brain Mapping Unit
Department of Psychiatry
Sir William Hardy Building
Downing Street
Cambridge CB2 3EB

Phone: +44 7583 535 307

Website: www.kirstiewhitaker.com