Using SVA with RRBS data
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4.1 years ago

Hello

I have seen a lot of posts with this question, but have not found an answer to this. I am analyzing my RRBS data with methylKit, and I can see in my PCA plots that there are some batch effects.

Is there a way to use SVA to estimate surrogate variables from methylation data? If yes, how to do that properly?

I have used it before with RNA-seq data, but am not sure on how to use with methylation data.

Thank you!

RRBS; sva batcheffects • 1.2k views
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