condplot: Draw the plot of the condition numbers vs. the number of...

In DeconRNASeq: Deconvolution of Heterogeneous Tissue Samples for mRNA-Seq data

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

Author(s)

Ting Gong [e-mail] Joseph D. Szustakowski [e-mail]

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)

DeconRNASeq documentation built on Nov. 8, 2020, 7:51 p.m.