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

In HenrikBengtsson/aroma.core: Core Methods and Classes Used by 'aroma.*' Packages Part of the Aroma Framework

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.

Author(s)

Henrik Bengtsson

HenrikBengtsson/aroma.core documentation built on Feb. 20, 2024, 9:17 p.m.