plotGInteractions: plot GInteractions

In trackViewer: A R/Bioconductor package with web interface for drawing elegant interactive tracks or lollipop plot to facilitate integrated analysis of multi-omics data

Description

plot graph for GInteractions

Usage

plotGInteractions(gi, range, feature.gr, ...)

Arguments

gi	an object of GInteractions
range	the region to plot. an object of GRanges
feature.gr	the feature.gr to be added. an object of GRanges
...	Not used.

Examples

library(InteractionSet) 
gi <- readRDS(system.file("extdata", "gi.rds", package="trackViewer"))
range <- GRanges("chr2", IRanges(234500000, 235000000))
library(TxDb.Hsapiens.UCSC.hg19.knownGene)
feature.gr <- genes(TxDb.Hsapiens.UCSC.hg19.knownGene)
feature.gr <- subsetByOverlaps(feature.gr, regions(gi))
feature.gr$col <- sample(1:7, length(feature.gr), replace=TRUE)
feature.gr$type <- sample(c("promoter", "enhancer", "gene"), 
                         length(feature.gr), replace=TRUE, 
                         prob=c(0.1, 0.2, 0.7))
plotGInteractions(gi, range, feature.gr)

trackViewer documentation built on Feb. 11, 2021, 2 a.m.