I am about to analyse a load of omic data from multiple platforms and it seems sensible for feature selection to use the same statistical test for all data types. Our response variable is continuous, but it is also discrete in another analysis. I was wondering what the best way of doing this was? I usually use limma for array and RNA-seq, but having to analyse these other data probably requires a different approach.
Our analysis includes flow cytometry, RNA-seq, microarray, and some proteomics.