coverageplot: Plot coverage on a small interval.

In Bioconductor/chipseq: chipseq: A package for analyzing chipseq data

Plot coverage on a small interval.

Description

A function that plots one or two coverage vectors over a relatively small interval in the genome.

Usage

coverageplot(peaks1, peaks2 = NULL, i = 1,
             xlab = "Position", ylab = "Coverage",
             opposite = TRUE, ...)

Arguments

peaks1, peaks2	A set of peaks as described by ranges over a coverage vector.
i	Which peak to use.
xlab, ylab	Axis labels.
opposite	Logical specifying whether the two peaks should be plotted on opposite sides (appropriate for positive and negative strand peaks).
...	extra arguments.

Author(s)

Deepayan Sarkar

Examples

cov <- Rle(c(1:10, seq(10, 1, -2), seq(1,5,2), 4:1), rep(1:2, 11))
peaks <- slice(cov, 3)
peaks.cov <- Views(cov, ranges(peaks))
peaks.cov.rev <- rev(peaks.cov)
coverageplot(peaks.cov, peaks.cov.rev, ylab = "Example")

Bioconductor/chipseq documentation built on Nov. 2, 2024, 7:23 a.m.