RNA-Seq data transformation prior to sample correlation analysis

If I’m starting with Deseq2 normalized counts what are some preprocessing steps that I should apply to these data before estimating sample correlation using the cor function in R? For example, would it make sense to quantile normalize the data?

• Hi @Alexis your question doesn't quite make sense, you are starting with normalised counts and you want to further normalise them? If you data is normalised you can proceed with Spearman's correlation analysis.
– M__
Jun 22 '20 at 22:29