RCircos.Parallel.Line.Plot: Draw Lines between Two Genomic Positions on Same Chromosome

In RCircos: Circos 2D Track Plot

Draw Lines between Two Genomic Positions on Same Chromosome

Description

Plot link lines inside a data track between two genomic positions on same chromosome. RCircos core components and graphic device must be initialized first.

Usage

RCircos.Parallel.Line.Plot(line.data=NULL, track.num=NULL, 
    side=c("in", "out"), line.width=1, inside.pos=NULL,
    outside.pos=NULL, genomic.columns=3, is.sorted=TRUE)

Arguments

line.data	A data frame containing chromosome, start and end position for each line.
track.num	Non-negative integer, the number of track to plot
side	Character vector, relative location to ideogram, either "in" or "out".
line.width	Non-negative numeric, same as lwd in graphic package
inside.pos	Non-negative numeric, inside position (relative to the centre of plot area) of the track.
outside.pos	Non-negative numeric, outside position (relative to the centre of plot area) of the track.
genomic.columns	Non-negative integer, total number of columns for genomic position in each row. Must be 3.
is.sorted	Logic, whether the data is sorted by chromosome names and start positions.

Author(s)

Henry Zhang

Examples

## Not run: 
library(RCircos);
data(UCSC.HG19.Human.CytoBandIdeogram);
data(RCircos.Line.Data);

RCircos.Set.Core.Components(
    cyto.info=UCSC.HG19.Human.CytoBandIdeogram, 
    chr.exclude=c("chrX", "chrY"), 
    tracks.inside=10, tracks.outside=5) 
RCircos.Set.Plot.Area();
RCircos.Chromosome.Ideogram.Plot()

RCircos.Parallel.Line.Plot(line.data, track.num=5, side="in")
RCircos.Parallel.Line.Plot(line.data, line.width=2, 
    inside.pos=2, outside.pos=2.5)

## End(Not run)

RCircos documentation built on March 18, 2022, 7:59 p.m.