plotViewpoint: Plot coverage around a virtual 4C viewpoint

In ComputationalRegulatoryGenomicsICL/GenomicInteractions: Utilities for handling genomic interaction data

Plot coverage around a virtual 4C viewpoint

Description

Plots coverage of interactions around a given viewpoint. This function requires the output of 'viewPoint()' as input. You should additionally specify the total region you wish to plot.

Usage

plotViewpoint(x, region, ylab = "Signal", xlab = NULL, ...)

Arguments

x	a GInteractions object which is output from viewPoint
region	The genomic region to plot
ylab	Y axis label.
xlab	X axis label. By default this is the chromosome of the region that is being plotted.
...	additional arguments to plot

Value

Coverage that is plotted (invisibly)

Examples

data(hic_example_data)
library(GenomicRanges)
pos <- GRanges(seqnames='chr15', ranges=IRanges(start=59477709, end=59482708))
region <- GRanges(seqnames='chr15', ranges=IRanges(start=58980209, end=59980208))
vp <- viewPoint(hic_example_data, pos, region)
plotViewpoint(vp, region)

ComputationalRegulatoryGenomicsICL/GenomicInteractions documentation built on April 16, 2022, 4:09 a.m.