ECDFPlot {RUVcorr} | R Documentation |
ECDFPlot
generates empirical cumulative distribution
functions (ECDF) for gene-gene correlation values.
ECDFPlot(X, Y, index = "all", col.X = "red", col.Y = "black", title, legend)
X |
A matrix or list of matrices of estimated gene-gene correlations. |
Y |
A matrix of reference gene-gene correlations (i.e. underlying known correlation structure). |
index |
A vector of indicies of genes of interest. |
col.X |
The color or colors for ECDF as estimated from |
col.Y |
The color for ECDF as estimated from |
title |
A character string describing title of plot. |
legend |
A vector describing |
ECDFPlot
returns a plot.
Saskia Freytag
Y<-simulateGEdata(500, 500, 10, 2, 5, g=NULL, Sigma.eps=0.1, 250, 100, intercept=FALSE, check.input=FALSE) Y.hat<-RUVNaiveRidge(Y, center=TRUE, nc_index=251:500, 0, 10, check.input=TRUE) Y.hat.cor<-cor(Y.hat) par(mar=c(5.1, 4.1, 4.1, 2.1), mgp=c(3, 1, 0), las=0, mfrow=c(1, 1)) ECDFPlot(Y.hat.cor, Y$Sigma, index=1:100, title="Simulated data", legend=c("RUV", "Truth")) ECDFPlot(list(Y.hat.cor, cor(Y$Y)), Y$Sigma, index=1:100, title="Simulated data", legend=c("RUV", "Raw", "Truth"), col.Y="black")