Star Trek and Star Wars are two different ends of the Space spectrum and therefore your tastes will likely lean one direction or the other.
Star Trek is more cerebral and looking into the philosophy of different interstellar races and communities interacting. Some of the TV episodes would culminate in nothing more than Kirk standing on the bridge and debating with another leader on the screen.
Star Wars is more visceral and about the adventure. This is one of the reasons that the prequels were not as well received when they added all the politics and tried to logically over-explain everything. Star Wars worlds are supposed to be a zodiac of color and themes, and clash together like a big screen equivalent of the Saturday popcorn serials of old.
One could also include the "Starwars-isation" of JJ's Star Trek movie... adding a splash of Star Wars mix to the Star Trek cocktail.
I dig 'em both.
I understand that people compare them because they are the two big, popular space franchises, but I don't think they are all that comparable.
I'll also go on record as saying I like both, but again, aside from the fact they take place outside of earth and aliens are involved, there isn't a whole lot of similarities to compare the two.