Can a expressed gene dataset yielded after CPM be used in DESeq2 and EdgeR?
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Sep • 0
@06de5a1f
Last seen 8 months ago
Germany

Hi,

Can a expressed gene dataset yielded after CPM be used in DESeq2 or EdgeR or the data should be completely raw count data?

Thanks a lot for your kind help in advance.

DESeq2 edgeR • 402 views
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Guido Hooiveld ★ 4.0k
@guido-hooiveld-2020
Last seen 2 hours ago
Wageningen University, Wageningen, the …

No, since both methods require the (raw) count data as input!

Also see e.g.: Workaround to using normalized counts as input for edgeR and How to do DEGs based on CPM

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