It doesn't matter! Not to worry! I've tested, and tested, and tested the analog RCA and Digital inputs on many of my digital amps and "THERE IS NO DIFFERENCE". I even put them on my highly revealing Klipschorn's to try and here the slightest difference, and there isn't any to be heard. They know this and analog RCA inputs are the mostly widely used and the audio purest go that route. If you just like having the digital inputs because you just prefer hooking thing up that way, that's a different situation.
Don't bother worrying about the analog inputs vs. the digital inputs, it's a waste of time. Out of 85 people listening while we tested, no one could hear a difference, no one knew which was which, and we all just use the RCA analogs now.