I have 10 samples from a RNAseq experiment (5 control, 5 disease), I have performed a cluster analysis for the samples and for the genes (4000 genes aprox) to see how they cluster (to see which samples are similar and which genes have similar expressions). I was wondering if in terms of statistics it makes any sense to perform a PCA of the samples instead of the genes?
thank you in advance!
prcomp
function in R. However, I'm not sure how much information you can get in a PCA with just 10 samples. $\endgroup$