intcorDens {MergeMaid}R Documentation

plot of density functions of integrative correlations

Description

Given a mergeExprSet, this function calculates and plots the density function of the integrative correlations, as well as densities for two "null distributions" obtained by randomly permuting sample IDs.

Usage

   intcorDens(x,method= c("pearson", "kendall", "spearman"),...)

Arguments

x Object of class mergeExprSet.
method Method used to calculate correlation coefficient.
... graphical parameters to be passed to plot.

Details

Integrative correlation coefficients are calcualted as follows. The first step is to identify the n genes common to all studies. Within each study, we calculate the correlation coefficient between gene g, and every other common gene. This gives a vector of length n-1. For a pair of studies, S1 and S2, we calculate the correlation of correlations for gene g. When there are more than 2 studies under consideration, all pairwise correlation of correlations are calculated and averaged.

Value

The value is null. Returns a plot.

See Also

mergeCor-class,intCor,modelOutcome

Examples

 
  data(mergeData)
  merged  <-mergeExprs(sample1,sample2,sample3)
  intcorDens(merged)

  intcorDens(merged,cex.legend=1.5)

  intcorDens(merged,lty=2)
  

[Package MergeMaid version 2.2.0 Index]