plotCNprofile: panConusig::plotCNprofile

In UCL-Research-Department-of-Pathology/panConusig: Pan-cancer copy number signatures analysis

panConusig::plotCNprofile

Description

Produces a plot of an allele specific copy number profile.

Usage

plotCNprofile(chr,start,end,
	majCN,minCN,main=NA,colours=NULL,
	YLIM=NULL,offsetVal=100,LWD=7,CEX=3,
	custom_legend=NULL)

Arguments

chr	Vector of chromosome names for each segment from a single copy number profile.
start	Vector of start positions for each segment from a single copy number profile.
end	Vector of end positions for each segment from a single copy number profile.
majCN	Vector of major copy number for each segment from a single copy number profile.
minCN	Vector of minor copy number for each segment from a single copy number profile.
main	Title for plot.
colours	Colours for plotting segments. If a vector, colours[1] will be used for major copy number, and colours[2] will be used for minor copy number. If a list, colours[[1]] will be used for major segments, colours[[2]] will be used for minor segments. Defaults to c("navyblue","darkorange") if left NULL.
YLIM	Y-axis limits for plotting.
offsetVal	Major and minor copy number states will be offset from their integer values by max(YLIM)/offsetVal so that they do not overlap.
LWD	Line width for plotting segments.
CEX	cex value for increasing text size. See par().
custom_legend	List of arguments to be called with legend().

Value

None.

UCL-Research-Department-of-Pathology/panConusig documentation built on March 25, 2022, 12:18 a.m.