I've made the case somewhere else, but it's more appropriate here.
Yes, yes. The oft looked upon antagonist Capt. Rhodes. But after giving this movie another viewing, I came to the realization that while certainly not a people person, Capt. Rhodes was just doing what he felt was best for his men.
He was given an absurd situation, exasperated by the fact the so-called science team was doing nothing but getting his men killed. In light of this, instead of even trying to work with Rhodes, the science team (and the pilot/radioman) instead engaged in a multi-tiered mutiny to seize necessary equipment and abandon the soldiers in a tomb.
First off, I agree. Rhodes was a prick. But by the time it came down to brass-tax, he was facing what amounted to a rebellion of support staff. Rhodes wanted to leave the base early on in his taking command. He didn't say he was going to leave the science team behind, only that due to the recent complications that it was time to abandon the mission (as nothing had been accomplished anyway.)
Ironically, this is precisely what the "protagonist" and her crew were planning on doing only their plan included leaving the soldiers behind. When Rhodes fired shots in anger (at Logan feeding his men to zombies, and then at the other doctor) both of these were simply desperate acts of a commanding officer faced with the situation the so-called protagonist put him in.
Granted, Rhodes became barbaric, but only AFTER the situation realized itself.
If anything, I'd say you could make the case that Logan and crew were the antagonists. They simply had a nicer smile painted on and more screen time.