Is there a demo on how to mark the points?

[rsiddharth-clustrex]

I'm a beginner. When I try to run it using my own mesh, the output mesh looks like:

Here's the source reference

[SuwoongHeo]

Sorry for the late response. Unfortunately, the points are marked manually with Matlab. Specifically, visualize the mesh by using "patch" function and use data cursor to select a specific vertex on it. Then export it to the workspace and find the index of the vertex by using, for example,

tt =cursor_info.Position;
find(vertices(:,1)==tt(1) & vertices(:,2)==tt(2) & vertices(:,3)==tt(3));
tmp(i,:) = ans;

[SuwoongHeo]

For the record, the above result is produced because the source mesh is assumed to be covered by the target mesh. It seems that you might have used a FaceWarhouse model as source and 3DMM as a target. However, 3DMM has missing part of had especially back of the head. Thus, I recommend swapping input. It would be work then.