So I have a dataset that consists of the batch correction through RUV-normalization of several microarray datasets containing tumoral and non-tumoral samples. The data is in Log2 RUV-normalized expression. I want to perform differential expression analysis. Is the limma package in R fit for this?
From what I've read the limma package expects Log2 expression data without normalization, but some tutorials I also find use normalized data.
Thank you very much to all!