using DEseq to produce RPKM and VST
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7.1 years ago
fi1d18 ★ 4.1k

Good morning friends,

At last I produced a file containing the reads raw counts. Now I should prepare VST and RPKM by DEseq, but I am not familiar with R. Only rstudio and DEseq package installed. Do you know any script or a way to start?

Thank you

RNA-Seq • 1.7k views
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Is not this what you are looking for? A: Calculating RPKM for DESeq

If yes, than here is good work-through solution https://github.com/mgonzalezporta/TeachingMaterial/blob/master/doc/25.normalising.md

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Read DESeq vignette. It's well written and easily understandable

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