Good question. The parcellation is created outside of Freesurfer (the data were shared from another lab and I don't know which program they used to create the parcellation; of course I can find out if this would be helpful). At any rate, the anatomy and parcellation align when viewed in AFNI.
Anthony On 1/13/12 2:11 PM, Douglas N Greve wrote: > Hi Anthony, how are you creating the parcellation? Are you generating > it off the orig.mgz? > doug > > Anthony Dick wrote: >> Hello, >> >> I am trying to train a cerebellar atlas based on 20 manually >> parcellated cerebellums. I have run the anatomical through >> freesurfer. When I try to load the overlay (parcellation) in tkmedit, >> the underlay (e.g., orig.mgz, T1.mgz) and the overlay (the >> parcellation) are no longer in alignment. >> >> However, loaded in AFNI the underlay and overlay of course align. Is >> there a quick fix to get them in alignment? >> >> Anthony >> > -- Anthony Steven Dick, Ph.D. Assistant Professor Department of Psychology Florida International University Modesto A. Maidique Campus DM 296B 11200 S.W. 8th Street Miami, FL 33199 Phone: 305-348-4202 (try this first) Lab Phone: 305-348-9057 or 305-348-9055 Fax: 305-348-3879 Email: ad...@fiu.edu Webpage: http://www.fiu.edu/~adick _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
