r - which kind of normalized gene expression matrix is suitable for cor, cor.test or corr.test

Question

I decided to use corr.test to calculate the correlation between genes.

And I know the input object must be a matrix or dataframe. But I don't think it's a vital part for me to pay attention to.

Now what confuses me is I don't know which kind of normalized gene expression matrix is suitable for corr.test. I think the FPKM gene counts after t() is suitable before. But I don't think so after somebody told me something about vst-transformed counts ？

Can somebody give me some advice ？ Now I have the FPKM value and corr.test .If I need to change my normalization method ?

question from:https://stackoverflow.com/questions/66067011/which-kind-of-normalized-gene-expression-matrix-is-suitable-for-cor-cor-test-or

Answer 1

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