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Genes' length to get RPKM if features count is not used?

Hi everyone

We used salmon and edgeR to get expressions using cpm. Now, I need to get RPKM also, is there a way to get genes length to compute rpkm using edgeR, if I didnot use feature counts originally?

Thanks

rna-seq edger salmon rpkm
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updated by h.mon h.mon • written by Sharon Sharon

1 answer

Salmon outputs effective gene length, and edgeR has a rpkm() function, use them to get what you want - even though you should use tpm instead.

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written by h.mon h.mon

Found it, the effective length, thanks so much :)

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written by Sharon Sharon

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