RNA degradation plot: why curves are so smooth?
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neverstop • 0
@neverstop-7227
Last seen 5.4 years ago

I'm analysing data from Affymetrix microarrays. I don't understand why I get such smooth curves in the RNA degradation plots.
This is what I get: enter image description here
I would expect sharp curves like these: enter image description here
Is there something wrong with the script I used?

degradation <- AffyRNAdeg(Data)
plotAffyRNAdeg(degradation, transform = "shift.scale", cols = NULL) 

Thank you.

normalization microarray affymetrix • 1.4k views
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@james-w-macdonald-5106
Last seen 7 hours ago
United States

Those curves are fine. However, I think you will find that plotting the densities and looking at PCA plots will be more informative than the RNA degradation plots

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