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I actually sent them an email and they said I could be accepted, but prior to enrollment I would have to finish any outstanding prerequisite classes.
It didn't really seem to answer my question of upper level classes replacing the Gen Bio classes, but I'm going to look further into it. I have plenty of Bio lab experience, just not the gen bio labs. Hopefully this one small detail won't tie me up too much.
Worst comes to worst, you take BioI during Summer II or in the Fall. I don't think the committee letter thing is a big deal, just have your LORs in line.