Nobody on COD can take a Quake player, but a Quake player can take a COD player with practice. Just my opinion on things.
And does that make a difference to anyone who matters (anyone who matters being the majority and/or the people responsible for making the game)? I don't think the plethora of people playing COD care all that much and the percentage of people who actually want to play competitively at the highest level for it to make a difference is like, what, 1%?
COD is a more mainstream game, so even taking out the differences in the game itself, when you go online in COD you are more likely to be playing against people with sub-1000 hours of experience in FPS games. So naturally it's going to feel like everyone is a noob when you play COD compared to a game where everyone playing has 1-10 thousand hours of experience.