Trouble with plotMA
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Entering edit mode
9 months ago
mrinsmrids • 0

I have been using RStudio to retrieve results through the plotMA function. But unfortunately the results that are being produced seems to look wayward. In fact, I get a blank graph when I try to plot the logFoldChange after performing lfcShrink and passing it to a variable called res.

res <- lfcShrink(dds_subset, coef="Intercept", type="apeglm")
resSig <- subset(res, padj < 0.1)
resSig

enter image description here

plotMA DeSeq2 R • 419 views
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Entering edit mode

Try to use DESeq2::plotMA as several packages have a plotMA function.

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Entering edit mode
9 months ago
ATpoint 57k

I guess same as here Strange MA plot from DESeq2

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