I guess that is one way to put it. ND tried to do something different here by showing that there are always two sides to each story, but apparently they didn't pull it off quite well, judging by people's reactions.
You know, it always bothered me (and disturbed me) the fact that so many people were not only okay with what Joel did at the end of Part I, but kept seeing him as a "hero" after that. So I suspect ND's plan this time around was to see how far they could take Ellie before people realize that there is something wrong with these characters.
Not a hero but most will relate with not allowing a dear one be killed and doing whatever it takes to ensure that.
Again, "two sides of the same story." For some reason is easy for people to relate with "not allowing a dear one be killed and doing whatever it takes to ensure that," but are not able to relate to having your father taken away from you while he was just trying to do something good for the world.