I’m a Bioinformatics MSc student and I’m looking to use DIABLO in my dissertation.
I’m just attempting the case study on the main website to try and learn more, yet when I reached the step where you can manually input parameters of the data, as in;
“list.keepX = list(mRNA = c(6,14), miRNA = c(5,18), proteomics = c(6,7)) # from tuning step”
I note than I end up with less selected variables than if I ran tune.block.splsda using the script, and the resulting plots are significantly different from those resulting after manually inputting the parameters. I was wondering why these specific parameters were chosen, if the tune.block.splsda returns more.
Apologies if this is a easy question, I’m still getting to grips with the tools and background knowledge!
Thank you in advance.