External Email - Use Caution Hi Freesurfer experts,
I'm trying to write the normals of the GM/WM meshes to the entire ribbon. We usually do it by: 1) Generate normal files from rh.white and lh.white mris_convert rh.white rh.white.gii mris_convert -n rh.white rh.white.normals.asc 2) Use matlab 'read_normals' function to read the normals and write individual directions xyz as a paint format file. g = gifti([path 'Analysis/' exam '/' subject '/surf/rh.white.gii']); norm = read_normals(g,[path 'Analysis/' exam '/' subject '/surf/rh.white.normals.asc']); write_wfile([path 'Analysis/' exam '/' subject '/surf/rh_normx.w' ],norm(:,1)); write_wfile([path 'Analysis/' exam '/' subject '/surf/rh_normy.w' ],norm(:,2)); write_wfile([path 'Analysis/' exam '/' subject '/surf/rh_normz.w' ],norm(:,3)); 3) Use mri_surf2vol method two to paint the normals into the ribbon. But the problem is that method two gives me lots of holes in the ribbon. I'm wondering if it's possible to use mri_surf2vol method one to paint the normals into the ribbon because method one does not leave holes in the ribbon. However, it seems like the overlay does not accept paint file format (rh_normx.w). The overlay in method one accepts rh.thickness as an input, as shown in the example on the website. I'm wondering how to convert the painting files to have the same format as rh.thickness? Thank you in advance, Yixin
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