Is there a way to change the categories that something can be normalized against to include user chosen parameters beyond plate, experiment, quadrant etc. I am hoping to normalize against my negative control. Thank you.
Not easily, no. Looking at the code here it looks like the types of normalization are hard-coded. My only suggestion, other than some python programming, is that you can do this sort of normalization using some database queries pretty quickly (assuming you know any SQL!).