ChIPSeeker - options(ChIPseeker.downstreamDistance = 500) seems not work
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@shangguandong1996-21805
Last seen 2.1 years ago
China

Below is my code


library(ChIPseeker)
library(TxDb.Hsapiens.UCSC.hg19.knownGene)
txdb <- TxDb.Hsapiens.UCSC.hg19.knownGene

files <- getSampleFiles()

options(ChIPseeker.downstreamDistance = 1000)
peakAnno <- annotatePeak(files[[4]], tssRegion=c(-3000, 3000),
                         TxDb=txdb)
plotAnnoPie(peakAnno)

options(ChIPseeker.downstreamDistance = 10)
peakAnno <- annotatePeak(files[[4]], tssRegion=c(-3000, 3000),
                         TxDb=txdb)
plotAnnoPie(peakAnno)

I find that no matter what number I enter in options(ChIPseeker.downstreamDistance = ). The percent of downstream is same, But the number in plot indeed change.

ChIPseeker • 1.2k views
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