histoPlot: Histogram plot function of the fcros package results

In fcros: A Method to Search for Differentially Expressed Genes and to Detect Recurrent Chromosomal Copy Number Aberrations

Description

This function allows to have a histogram plot. It uses the statistics "ri" or "u1" obtained using one of the following functions: fcros(), fcros2(), fcrosMod(), pfco() or pfcoMod().

Usage

histoPlot(af, nbins = 50)

Arguments

af	This is an object obtained using the function fcros(), fcros2(), fcrosMod(), pfco() or pfcoMod()
nbins	This parameter is used for the number of bins in the histogram. Default setting is 50: nbins = 50

Value

This function plots a histogram on the screen.

Author(s)

Doulaye Dembele [e-mail]

References

Dembele D and Kastner P, Fold change rank ordering statistics: a new method for detecting differentially expressed genes, BMC Bioinformatics, 2014, 15:14

Dembele D and Kastner P, Comment on: Fold change rank ordering statistics: a new method for detecting differentially expressed genes, BMC Bioinformatics, 2016, 17:462

Examples

   data(fdata);
   rownames(fdata) <- fdata[,1];

   cont <- c("cont01", "cont07", "cont03", "cont04", "cont08");
   test <- c("test01", "test02", "test08", "test09", "test05");
   log2.opt <- 0;

   # perform fcros() and pfco()
   af <- fcros(fdata, cont, test, log2.opt);
   af2 <- pfco(fdata, cont, test, log2.opt);

   # Histogram plots
   op <- par(mfrow = c(1,2))
      histoPlot(af);
      histoPlot(af2);
   par(op);

fcros documentation built on May 31, 2019, 5:03 p.m.