RNAither (version 2.20.0)

MannWhitney: Perform a Mann-Whitney test

Description

Performs the non-parametric Mann-Whitney test on the intensity data.

Usage

MannWhitney(dataset, listofargs)

Arguments

dataset

an R data frame generated with generateDatasetFile

listofargs

a list containing:

- "g" (greater) for significant increase, "l" (lower) for significant decrease, or "two.sided" for both

- either a number indicating the true value of the mean, or a character string indicating the name of the gene to compare with

- a character string specifying the column whose values will be used for the test

- a character string specifying the name of the dataset column to be used to define the replicate, e.g. "GeneName" or "Internal_GeneID"

Value

Returns a list containing:

pValVec

a named vector of p-values

dataset

the dataset with an added column "p.value.mannwhitney"

paste("pValue.mannwhitney", testType, sep="_")

the character string "p.value.mannwhitney" concatenated with the testType (first element of listofargs)

"Mann-Whitney test"

the character string "Mann-Whitney test"

See Also

Ttest, RankProduct

Examples

data(exampleHeader, package="RNAither")
data(exampleDataset, package="RNAither")

pvals1 <- MannWhitney(dataset, list("l", median(dataset$SigIntensity, na.rm=TRUE), 
"SigIntensity", "GeneName"))
pValVec1 <- pvals1[[1]]
scoredDataset1 <- pvals1[[2]]