Try changing the header information in your parcellation, something like mri_convert yourparcellation.mgh --in_like orig.mgz yourparcellation.new.mgh doug
Anthony Dick wrote: > 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 >>> >> > > -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html _______________________________________________ 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.
