resamplingPvalues: Resampling of microarray expression values and test for...
In assaron/BioNet: Routines for the functional analysis of biological networks

Description Usage Arguments Value Author(s) Examples

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.

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

`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.

A result list is returned, consisting of:

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

Daniela Beisser

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