The html help pages in R are created dynamically from the .Rd manual pages; however it is also possible to create static .html help pages to post on the web (or have available for review without R open). I have done this now & posted them to the phytools page. For example, the static help page for make.simmap can be seen here. You can also see an index of all functions available in the latest version of phytools. Check it out.
For more information about building static html help pages in R, see the following link.