propBarplot: A plotting function for proportion by sample
In GISPA: GISPA: Method for Gene Integrated Set Profile Analysis

Description Usage Arguments Details Value Author(s) Examples

View source: R/propBarplot.R

Given a gene, this function will plot the proportion of each sample over the three samples within each data type

1	propBarplot(gispa.output,feature,cpt,input.cex,input.cex.lab,ft.col,strip.col)

`gispa.output`	: A data matrix of between gene feature profile statistics for each feature with corrosponding identified changepoints. The row names should corrospond to genes or names to be displayed on y-axis
`feature`	: Analysis type i.e., one ('1'), two ('2') or three ('3') dimensional feature analysis.
`cpt`	: Changepoints to be plotted.
`input.cex`	: character (or symbol expansion) for the x- and y-axis labels
`input.cex.lab`	: character (or symbol expansion) for the horizontal and vertial strip labels
`ft.col`	: a vector of colors of the bar for the features or data types
`strip.col`	: color to be used for the vertial strip

This function expects the output from the main function of GISPA package, and highlights the gene set in the selected changepoints and their proportion in each of the three sample groups by data type.

Barplot illustrating each sample proportion for each gene in the selected change point

Bhakti Dwivedi & Jeanne Kowalski

id <- 20 ## number of rows
s <- 3 ## number of columns
dm <- matrix(runif(id*s,0,10), nrow=id, ncol=s, 
                 dimnames=list(paste("gene", 1:id, sep=""), 
                 paste("fs", 1:s, sep="")))
changepoints <- sort(sample(1:2, id, replace=TRUE))
dm <- cbind(dm,changepoints)
propBarplot(gispa.output=dm,feature=2,cpt=1,
           input.cex=0.5,input.cex.lab=0.5,
           ft.col=c("grey0", "grey60"),strip.col="yellow")