[jayson]

Nevermind, I found some notes from class where we talked about this. Looks like I treat the lone pair as the lowest priority and set it's position to in or out based on other groups (i.e. if the R group is coming out of the page then the lone pair must go into the page, and vice versa if the R group is going in to the page). Then it's just like assigning stereochemistry for carbon centers.