I have loaded through GEOquery a GSE serie, I used this function from a quick tutorial I found and I just modified with my dataset of interest:
GSE16444 <- getGEO('GSE16444', GSEMatrix=FALSE)
I tried to transform in a dataset with the function find in the same tutorial:
eset <- GDS2eSet(gds,do.log2=TRUE)
my daaset of interest it is a miRNA microarray dataset, what I would like to do is to perform the different express miRNAs between two groups of the dataset. How I should procede? Which packages and function you suggest?
thank you very much for your help