Hi, I have a set of fairly old MRIs which have been run on freesurfer. Occasionally scans have scrambled pial or white matter boundaries - a knot-like appearance especially in sulci. I am wondering how freesurfer estimates cortical thickness in these regions. For example, does it take the pial boundary closest to the white boundary i.e. the outer surface of the 'pial knot'? Are the encapsulated GM voxels included in the overall cortical thickness measurement?
Thanks- Brendan Ansell MNC _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
