Joel, All freesurfer volume files, including aseg.mgz, are in native MRI space. The various talairach transforms are used to align to the atlases used in freesurfer. I'm not sure what you mean by 'norm' space. The --apply_transform flag of mri_convert can be used to convert a volume to talairach space (see mri_convert --help for details).
Nick On Tue, 2007-11-13 at 12:01 -0600, joel bruss wrote: > Hello- > > I'm running FreeSurfer v4.01on SUSE Linux > > I'm interested in viewing the sub-cortical parcels, /mri/aseg.mgz, but > in the native MRI space. I see that the output of "CA Label" produces > a file that is fit to the "CA Normalize" step but I can't figure out > the transform that was used. Specifically, for CA Normalize, if I > look under /mri/transforms, and sort by time, I have both the > talairach.lta and talairach.m3z files, but neither will get me from > native to norm space (or vice-versa). Is there a transform file that > I'm missing or is this a process of intermediate steps to get from > native to norm space? Please help! > > Thanks, > Joel > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
