DESeq2 for different design and normalized counts

Hi,

I have normalized count data from RNA-seq protocol. The normalization steps include DESeq2 with design ~1. Unfortunately, I do not have the raw counts. Can I use those normalized counts for DESeq2 with different design? Thank you.

deseq2 log2foldchange

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updated 3.2 years ago by ATpoint

• written 3.2 years ago by t.ru •

Nope, please read the manual of DESeq2, it clearly tells to use raw counts. What "normalized counts" do you have exactly? limma-trend might be an option.

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written 3.2 years ago by ATpoint

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