Relative abundance of differentially abundant ASVs after DESeq2
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Marion • 0
@d520409c
Last seen 4 weeks ago
France

Hello,

I used DESeq2 to see which ASVs were differentially abundant on 16S metabarcoding data. I now want to plot the relative abundance (in %) of those ASVs.

However, I am unsure which data to plot: is it ok to simply use the raw read table (transformed to %) or should I use a normalized or transformed reads count table (rlog or vst)? Wouldn't the second option be less true to the original data?

I am sorry as this is probably a very basic question, I just can't figure it out!

Thank you very much :)

DESeq2 • 120 views
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@mikelove
Last seen 2 days ago
United States

Sorry, I don't have any experience with metagenomics really, so I'm not sure what's preferred for visualization in that community. Maybe you could post to Biostars?

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Thank you for your answer Michael! I'll try there.

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