aroma.core (version 2.6.0)

plotTracks.PairedPSCNData: Plots parental specific copy numbers along the genome

Description

Plots parental specific copy numbers along the genome for one or more chromosomes. It is possible to specify what type of tracks to plot. Each type of track is plotted in its own panel.

Usage

## S3 method for class 'PairedPSCNData':
plotTracks(x, tracks=c("tcn", "dh", "tcn,c1,c2", "tcn,c1", "tcn,c2", "c1,c2", "betaN", "betaT", "betaTN")[1:3], pch=".", col=NULL, cex=1, grid=FALSE, xlim=NULL, Clim=c(0, 6), Blim=c(0, 1), xScale=1e-06, ..., add=FALSE, subplots=!add && (length(tracks) > 1), verbose=FALSE)

Arguments

tracks

A character vector specifying what types of tracks to plot.

pch

The type of the scatter points, if any.

col

The color of the scatter points, if any.

cex

The size of the scatter points, if any.

grid

If TRUE, horizontal lines are displayed.

xlim

(Optional) The genomic range to plot.

Clim

The range of copy numbers.

Blim

The range of allele B fractions (BAFs) and decrease of heterozygosity (DHs).

xScale

The scale factor used for genomic positions.

...

Not used.

add

If TRUE, the panels plotted are added to the existing plot, otherwise a new plot is created.

subplots

If TRUE, then subplots are automatically setup.

verbose

See Verbose.

Value

• Returns nothing.