CountPlot {GeneMeta}R Documentation

Plots for Meta-analysis of gene expression data.

Description

Plots for meta-analysis

Usage

IDRplot(m,CombineExp=1:(length(grep("zSco_Ex",colnames(m)))),colPos="black",colNeg="red",pchPos="*",pchNeg="*",type="b",ylab="IDR",xlab="z threshold",...)
CountPlot(kkk,cols,Score=c("FDR","zSco"),kindof=c("two.sided","pos","neg"),type="b",pch="*",ylab="Number of genes",xlab="FDR threshold",CombineExp=1:((ncol(m)-6)/2-1) ,...)

Arguments

m result matrix of the function zScores
type plot parameter
ylab plot parameter
xlab plot parameter
pch plot parameter
colPos color for positive z scores
colNeg color for negative z scores
pchPos symbol for positive z scores
pchNeg symbol for negative z scores
CombineExp vector of integer- which experiments should be combined-default:all experiments
kkk result object of function zScoreFDR
cols vector of cols, one for each experiment, and one for the combination
Score should the FDR or the zScore be plotted
kindof "pos", "neg" or "two.sided"
... additional plot parameter

Details

IDRplot produces a plot described in Choi et al.

Value

Author(s)

M.Ruschhaupt

References

Choi et al, Combining multiple microarray studies and modeling interstudy variation. Bioinformatics, 2003, i84-i90.

Examples






[Package GeneMeta version 1.4.0 Index]