DeconRNASeq (version 1.14.0)

condplot: Draw the plot of the condition numbers vs. the number of genes in the signature matrix

Description

A function is used to draw the plot of the condition number of signature matrices of all sizes, from a handful of genes in one extreme to the whole signature in the other.

Usage

condplot(step, cond)

Arguments

step

an array with the number of genes used to calculate the condition numbers of signature matrices, default stepwise = 20

cond

an array with the condition numbers of signature matrices

Value

a plot for the condition numbers of signature matrices

References

Gong, T., et al. (2011) Optimal Deconvolution of Transcriptional Profiling Data Using Quadratic Programming with Application to Complex Clinical Blood Samples, PLoS One, 6, e27156.

Examples

library(DeconRNASeq)
####################################################################
## toy data example:


      step <- seq(20,1000, by=20) #every 20 genes
      ## cell type-specific gene expression matrix:
      x.signature <- matrix(rexp(2000),ncol=2)
      sig.cond <- sapply(step, function(x) kappa(scale(x.signature[1:x,]))) 
      function (step, cond)