Having worked for Kalitta and having a friend at Atlas, I would say Atlas is the better long term airline. They don't have the home basing, but they are ahead of the curve in aircraft acquisition and have payscale.
I am at a pax carrier now and like it much more. Time at home, pay, and retirement are much better. I do miss 13 or 14 off in a row every month, but time with the family is now much better.