resamplingPvalues {BioNet} | R Documentation

## Resampling of microarray expression values and test for differential expression.

### Description

The function uses a 50% jackknife resampling to calculate a pseudo-replicate of the expression matrix. The resampled expression values are used thereupon to calculate p-values for the differential expression between the given groups. Only two-group comparisons are allowed for the perfomed t-test.

### Usage

    resamplingPvalues(exprMat, groups, alternative = c("two.sided", "less", "greater"), resampleMat=FALSE)

### Arguments

`exprMat` | Matrix with microarray expression values.
`groups` | Factors for two groups that are tested for differential expression.
`alternative` | Testing alternatives for the t-test: "two.sided", "less" or "greater".
`resampleMat` | Boolean value, whether to retrieve the matrix of jacknife resamples or not.

### Value

A result list is returned, consisting of:

`p.values` | VNumerical vector of p-values.
`resampleMat` | Matrix of resampled expression values.

### Author(s)

Daniela Beisser

### Examples

    library(ALL)
    data(ALL)
    mat <- exprs(ALL)
    groups <- factor(c(rep("A", 64), rep("B", 64)))
    results <- resamplingPvalues(mat, groups, alternative="greater")

[Package BioNet version 1.40.0 Index]