RCircos.Line.Plot: Draw Lines for One Data Track

In RCircos: Circos 2D Track Plot

Draw Lines for One Data Track

Description

Draw one track of continue lines which connect each neighbor data points. RCircos core components and graphics device must bae initialized before drawing.

Usage

RCircos.Line.Plot(line.data=NULL, data.col=4, track.num=NULL,  
    side=c("in", "out"), min.value=NULL, max.value=NULL,  
    inside.pos=NULL, outside.pos=NULL, genomic.columns=3,  
    is.sorted=TRUE)

Arguments

line.data	A data frame with the first three columns for chromosome names, start and end position of each data point followed by data values for one or more samples.
data.col	Non-negative integer, representing the ordinal number of the column in input dataset that contains the data to be plotted.
track.num	Non-negative integer, representing the ordinal number of the plot track where the lines will be plotted.
side	Character vector, either "in" or "out", representing the position related to chromosome ideogram.
min.value	Numeric, minimum value of line data.
max.value	Numeric, maximum value of line data
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 either 3 or 2.
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"),  
    num.inside=10, num.outside=0) 

RCircos.Set.Plot.Area() 
RCircos.Chromosome.Ideogram.Plot()  

RCircos.Line.Plot(RCircos.Line.Data, data.col=5,  
    track.num=1, side="in")
RCircos.Line.Plot(RCircos.Line.Data, data.col=5,  
    side="in", inside.pos=1.5, outside.pos=1.75)  

## End(Not run)

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