DE-Seq2 requires normalized counts. Suppose you have a public dataset where only normalized count data, for example TPM, is available. In that case would it be at all correct to probe the normalized gene counts between conditions using a statistical test? And what would be the reasoning to either do or not do it? I don't think it is correct but just want to double-check with the community as in the literature I've seen several studies where normalized counts are plotted and compared between conditions (outside of DESEq2 or another DE method), despite documentation of RNA-seq methods advising against it.