Hello Josh,
While I have no experience doing that myself, I know DHI has carried out that sort of studies. Here's a flyer about one: http://www.dhigroup.com/-/media/shared%20content/global/references/nala/case%20stories/modelling%20ship%20waves%20in%20unique%20nature%20reserves.pdf
I hope that helps.
Best regards,
Ricardo Machado