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Shians / NanoMethViz

https://shians.github.io/NanoMethViz/
Apache License 2.0
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convert into full DGEList (edgr) #17

Open 0Bernhard opened 2 years ago

0Bernhard commented 2 years ago

Hello

Sorry to bother you again.

I was wondering how to get the full DGEList to follow the edgr methylation analysis guide (page95). https://www.bioconductor.org/packages/release/bioc/vignettes/edgeR/inst/doc/edgeRUsersGuide.pdf The bsseq_to_edger function extracts really nicely the counts but I would like to annotate the loci similar the one described in the user guide. I was thinking that you probably found a nice way around this issue.

Thank you, Berni

Shians commented 2 years ago

I don't have an automatic solution for this yet. In the future I should be able to transfer any annotation existing in the bsseq object onto a DGEList object, but at the moment you'll have to manually create the DGEList object yourself with association annotations. The annotations will have to be matched up against the rownames of the count matrix produced by bsseq_to_edger.