RCircos.Reset.Core.Components: Reset Methods for Modifying RCircos Core Components

In RCircos: Circos 2D Track Plot

Reset Methods for Modifying RCircos Core Components

Description

Reset RCircos core components: plot ideogram, plot position, and plot parameters.

Usage

RCircos.Reset.Plot.Ideogram(chrom.ideo)
RCircos.Reset.Plot.Positions(plot.positions)
RCircos.Reset.Plot.Parameters(new.params)

Arguments

chrom.ideo	Data frame, object of RCircos cytoband data returned from RCircos.Get.Plot.Ideogram().
plot.positions	Data frame, object of RCircos plot positions returned from RCircos.Get.Plot.Positions().
new.params	List, object of RCircos plot positions returned from RCircos.Get.Plot.Parameters()

Author(s)

Henry Zhang

Examples

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

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

ideo <- RCircos.Get.Plot.Ideogram()
rows <- which(ideo$BandColor=="red"
ideo$BandColor[rows] <- "green"
RCircos.Reset.Plot.Ideogram(ideo)

params <- RCircos.Get.Plot.Parameters()
params$base.per.unit <- 6000
RCircos.Reset.Plot.Paramters(params)

positions <- RCircos.Get.Plot.Positions();
positions[1, 3] <- 0;
RCircos.Reset.Plot.Positions(positions);

## End(Not run)

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