facetPlot: Plot all chromosomes horizontally next to each other

In CAFE: Chromosmal Aberrations Finder in Expression data

Description

Plots all chromosomes in horizontal alignment next to each other, with optionally a moving average smoother applied to the data

Usage

 
facetPlot(datalist,samples=c(1,2),slid=FALSE,combine=FALSE,k=1,file="default")

Arguments

datalist	The CAFE datalist to be analyzed, i.e. the output of ProcessCels.
samples	A vector or sample numbers to be plotted
slid	If TRUE, use moving average smoother
combine	If TRUE, will plot the unaltered raw data in the background
k	The sliding window size. Must be a positive integer, smaller than the length of Affy IDs on the chromosome
file	Specify a file name to store output png file

Value

Plot to file system. Return a ggplot2 graph

Note

Makes heavy use of the ggplot2 package

Author(s)

Sander Bollen

References

H. Wickham. ggplot2: elegant graphics for data analysis. Springer New York, 2009.

See Also

slidPlot rawPlot discontPlot

Examples

data("CAFE_data")
facetPlot(CAFE_data,samples=9)

CAFE documentation built on Nov. 8, 2020, 7:44 p.m.