User: corentin.lyon

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Posts by corentin.lyon

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Comment: C: DESeq2 lfcshrink generate 0 svalues
... Ok this makes sense, Last thing I am not sure to understand, to have a FDR of 1% should I use a treshold on 0.01 padj or 0.01 svalue? ...
written 6 weeks ago by corentin.lyon0
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DESeq2 lfcshrink generate 0 svalues
... I run DESeq2 using lfcShrink to get LFC estimates: resLFC <- lfcShrink(dds, coef="condition_T_vs_O", type="apeglm",lfcThreshold = 1,svalue = TRUE) I then want to plot a volcanoplot using svalues: ggplot(as.data.frame(resLFC), aes(x=log2FoldChange, y=-log10(svalue),color=svalue<0.005 ...
deseq2 written 6 weeks ago by corentin.lyon0 • updated 6 weeks ago by Michael Love26k

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