DESeq2 R markdown plotting problem
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Entering edit mode
4 weeks ago
Pahi • 0

Hello!

I'm working on my DESeq2 data analysis and I want to make a report with R Markdown. But I have a problem when I get to the deseq2 plotMA part.

In the markdown HTML I get a plot like this:

enter image description here

But when I run the SAME code in R I get a plot like this:

enter image description here

Any idea what could be the problem?

markdown R plot deseq2 • 209 views
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3
Entering edit mode
4 weeks ago

What other libraries are you loading? My guess is on your markdown, plotma is being called from some other library. You can make sure that your can specify that you want deseq2::plotma

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0
Entering edit mode

Yes! Thank you! That solves the probelm!

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