Dear mixOmics team,
I am analysing data that were obtained from groups of samples that have meaningful order (i.e. disease severity). I thought of PLS-DA, but then it would be one-vs-all comparisons, which I was not investigating for. Would it make sense to set my group label as numbers (i.e. 1, 2, 3, 4, and so on) in the Y matrix? What is the caveat that I have to keep in mind if I run the analysis in this manner?
Thank you for your time.