plot.SpliceSitesGenomic: Function to plot SpliceSitesGenomic objects

In splicegear: splicegear

Description

Function to plot SpliceSitesGenomic objects.

Usage

## S3 method for class 'SpliceSitesGenomic'
plot(x, col.variant = par("col"), col.exon = "white",
                        split = FALSE, main = names(x@variants), ...)

Arguments

x	SpliceSitesGenomic-class
col.variant	a vector of colors for the different variants. The colors are recycled as necessary.
col.exon	a vector of colors for the exons. The colors are recycled as necessary.
split	split the plot of the variants in individual plots
main	character to use as a title. Recycled as necessary.
...	optional graphical parameters

Value

This function is used for its side-effect.

Author(s)

Laurent

See Also

SpliceSitesGenomic-class

Examples

## a 10 bp window
seq.length <- as.integer(10)
## positions of the exons
spsiteIpos <- matrix(c(1, 3.5, 5, 9, 3, 4, 8, 10), nc=2)
## known variants
variants <- list(a=c(1,2,3,4), b=c(1,2,3), c=c(1,3,4))
##
n.exons <- nrow(spsiteIpos)

spvar <- new("SpliceSitesGenomic", spsiteIpos=spsiteIpos,
         variants=variants, seq.length=seq.length)

par(mfrow = c(3,1), mar = c(3.1, 2.1, 2.1, 1.1))

plot(spvar, split=TRUE, col.exon=rainbow(n.exons))

splicegear documentation built on Oct. 31, 2019, 7:40 a.m.