Estimation of proportion of differentially expressed genes

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Description

Estimation of proportion of differentially expressed genes. This estimation is based on a histogram of the p-values. More specifically, based on the horizontal line representing a uniform distribution based on the p value distribution between 0.5 and 1. This represents the hypothetical p value distribution arising just by chance. All genes with small p-values above this line reflect the expected number of differentially expressed genes not by chance.

Usage

1

Arguments

pValue

a vector of p-values

Author(s)

Willem Talloen and Tobias Verbeke

See Also

histPvalue

Examples

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if (require(ALL)){
  data(ALL, package = "ALL")
  ALL <- addGeneInfo(ALL)
  ALL$BTtype <- as.factor(substr(ALL$BT,0,1))

  tTestResult <- tTest(ALL, "BTtype")
  histPvalue(tTestResult[,"p"], addLegend = TRUE)
  propDEgenesRes <- propDEgenes(tTestResult[,"p"])
}

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