Thanks everyone. An update, her primary physician sent her to a lung specialist about a week ago and he looked over her tests from both the hospital stay and the other ER visit and said it's an infection and that there was improvement. Gave her an inhaler and told her to keep using the nebulizer she was given by the ER Dr. and said she should be fine in 4-6 weeks.
That's one less thing for me to worry about.