Totally fair. I have a bunch of patches I've made for the Pod HD Desktop that I'll be comparing as well. What I'll probably try to do is dial in tones with the same or similar amps/pedals/cabs (or IRs) for a couple of weeks until I decide which I prefer.
Honestly, I want to prefer the Helix. It costs less, looks nice, has integrated pedals, the interface is gorgeous, and I'm already used to Line 6 stuff.