Dear Mingrui,

I’ve been trying to plot simultaneously a surface (lh.pial and rh.pial from FreeSurfer after merging them with the BrainNet tool) and a volume (the aparc+aseg VOI map, converted to a .nii file with mri_convert from FreeSurfer). Although I got no errors in the process, the pial surface and the VOIS are clearly misaligned, and the VOI map lies far away from the surface.

I read in a similar help topic that you recommended to comment a couple of lines in the BrainNet.m file to solve this problem. However, in the version I got, these lines are already commented and still have the same issue. Any help would be highly appreciated.