RnBeads, enrichment analysis
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@gaiusjaugustus-10041
Last seen 4.0 years ago
University of Arizona

Hi, I have completed my first DMR analysis with the 450k array data using RnBeads.  The final differential analysis line of code was:

rnb.run.differential(rnb.set, report.dir)

But an enrichment analysis wasn't run.  Here are my options.

rnb.options(filtering.sex.chromosomes.removal=TRUE, identifiers.column= "Sample_ID", import.table.separator="\t", "differential.comparison.columns"=c("TumorNormal"), "columns.pairing"=c("TumorNormal"="Sample_Name"), inference.targets.sva=c("Sample_Group"), inference.sva.num.method="be")

 

I assume that I forgot to put something here, but any help would be appreciated.  I'd like to run my enrichment analysis on my differentially methylated regions (genes).

rnbeads • 736 views
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