Is there a way to customize menus displayed in CoursePress Pro

I am adding CoursePress Pro as a Pro-Site level plugin. I am also setting up a blog template. I love the fact that you can choose to have the menus display automatically which will be a great help for our non-technical subsite admins. However, we also are using BuddyPress and there are too many nav menus. What I would like is to have the Courses be a primary navigation men and the Dashboard be a submenu of the Courses menu. Also, since we are using BuddyPress, the Profile menu would be confusing so I would like to not use it here. Is it possible to have a "customized" auto menu setup?