Prince Rupert, BC ferry to south eastern Ak

is what I'd do if I were you. That is the closest and perhaps the most scenic route from BC to the most scenic area of Alaska. Have to warn you - there will be rains since it's the rainforest. Here is the website to Ak Marine Hwy http://www.akmhs.com/
However many stops you make on the ferry, make sure your last stop connects to the main highway. I believe that would make it Skagiway. If you have time, get as close to Glacier Bay NP as possible. The only way to experience Glacier Bay though is by boat tours. Some ferry routes do go through Glacier Bay.
There may not be daily ferries on many routes - you should make ferry reservations ahead of time. Keep in mind many of these Southeastern Ak terminals do not have roads to the outside world. Without a reservation and a ferry gets filled, you may be stuck for days.