I have microRNA (miRNA) expression data in RPM. I would like to do differential gene expression between two groups.

How can I do this?

I have considered edgeR and DESeq2 in R, but it looks like they require counts and I cannot use RPM in these. Or can I convert RPM to counts?

Can anyone help?

  • 2
    $\begingroup$ This has been asked many times before. Here is an answer from the edgeR/limma author. Approach 2 in the toplevel question is probably the best choice here if you don't have counts: support.bioconductor.org/p/125144/#125156 so an analysis with limma starting from the RPMs on log scale. $\endgroup$
    – ATpoint
    Aug 23 at 21:19
  • $\begingroup$ Thank you. I will try that. $\endgroup$ Aug 24 at 3:37

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