You most certainly can. The only difference is that you will probably need to adjust the settings in the computer to compensate for the added flow of a turbo.
Im sure that Yamaha will offer some sort of computer program for doing this, they've offered it for the R1 and R6 for years, I see no reason why they wont do the same for the sleds.
Also, dont ever be afraid of sounding stupid. There are no stupid questions, only stupid people who ask questions!
Hebi