Hi Sancgeetha

you can use mri_surf2vol to sample the thickness into the volume if you want. The thickness file itself does not contain any topological information - that is stored in the surface files (e.g. lh.pial)

cheers Bruce On Wed, 12 Oct 2016, Sancgeetha Kulaseharan wrote:

Hello Freesurfer Experts,

I am using Freeview to visualize cortical thickness with the command freeview -v mri/T1.mgz \ -f surf/lh.pial:overlay=lh.thickness

While the cortical thickness overlay is visible in the 3-Dimensional display, I was wondering if it was possible to also view the cortical thickness map on a slice-by-slice case?

Also where can I find topological information on ?h.thickness files?

Thank you, Sancgeetha