plot.localZScoreResultsList: Plot a list of localZscore results

In bernatgel/regioneR: Association analysis of genomic regions based on permutation tests

Plot a list of localZscore results

Description

Function for plotting the a localZScoreResultsList object.

Usage

## S3 method for class 'localZScoreResultsList'
plot(x, ncol = NA, main = "", num.x.labels = 5, ...)

Arguments

x	an object of class localZScoreResultsList.
main	a character specifying the main title of the plot. Defaults to no title.
num.x.labels	a numeric specifying the number of ticks to label the x axis. The total number will be 2*num.x.labels + 1. Defaults to 5.
...	further arguments to be passed to or from methods.

Value

A plot is created on the current graphics device.

See Also

localZScore

Examples

genome <- filterChromosomes(getGenome("hg19"), keep.chr="chr1")
A <- createRandomRegions(nregions=20, length.mean=10000000, length.sd=20000, genome=genome, non.overlapping=FALSE) 
B <- c(A, createRandomRegions(nregions=10, length.mean=100000, length.sd=20000, genome=genome, non.overlapping=FALSE))

pt <- overlapPermTest(A=A, B=B, ntimes=10, genome=genome, non.overlapping=FALSE)
 
lz <- localZScore(A=A, B=B, pt=pt)
plot(lz)

pt2 <- permTest(A=A, B=B, ntimes=10, randomize.function=randomizeRegions, evaluate.function=list(overlap=numOverlaps, distance=meanDistance), genome=genome, non.overlapping=FALSE)
plot(pt2)

bernatgel/regioneR documentation built on Sept. 10, 2023, 12:03 a.m.