how to do Differential splicing from SGSeq analysis
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Sara • 0
@95b4edca
Last seen 2 days ago
Belgium

Hi,

I was following the SGSeq tutorial, but there were some things that I didn't understand properly. I would appreciate further explanation, please.

As following the tutorial document for section 11, I created the SGVariantCounts object.


sgv <- rowRanges(sgvc_pred)
sgvc <- getSGVariantCounts(sgv, sample_info = si)
sgvc


x <- counts(sgvc)
vid <- variantID(sgvc)
> vid
[1] 1 2

vid output is only an integer. Could you explain what these numbers are? as well as for eid?

eid <- eventID(sgvc)
> eid
[1] 1 1

now, which information do I have to extract to use as input for differential splicing analysis using DEXSeq? How do I build my DEXSeqDataSet object for further analysis?

Many thanks in advance!

DEXSeq SGSeq • 156 views
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