I am trying to represent brain masses as separate surfaces in their native space along with the pial surface. I used the afni drawing tool to draw out each mass and then used IsoSurface -input drawnfile -isoval V -mergerois -o_fs output_surf to create the surfaces. I am representing these objects in freesurfer space so I’ve had to apply a transformation matrix to the ouput ascii file. Is there a way I can smooth the drawn mass surface so that it looks cleaner? If this is possible, is there a way I can do that with my modified ascii file or do I need to start the process from the .brik output of the drawn rois?
Thank you for your help,