OGSA (version 1.2.0)

testGScogps: testGScogps

Description

Performs gene set test on outlier counts

Usage

testGScogps (outlierCts, geneSets)

Arguments

outlierCts

Vector with gene names and outlier counts

geneSets

List of gene sets

Value

A vector with rank sum gene set statistics

References

Ochs, M. F., Farrar, J. E., Considine, M., Wei, Y., Meshinchi, S., & Arceci, R. J. (n.d.). Outlier Analysis and Top Scoring Pair for Integrated Data Analysis and Biomarker Discovery. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 1-1. doi:10.1109/tcbb.2013.153

Examples

## Not run: 
# data(ExampleData)
# data('_BC_GS')
# 
# #Set up your phenotype
# phenotype <- rep(0, 69)
# phenotype[annot[, 3] == 'Event'] <- 1
# names(phenotype) <- rownames(annot)
# 
# # set up values for expr-meth-cnv in that order
# tailLRL <- c('left', 'right', 'left')
# 
# dataSet <- list(expr, meth, cnv)
# 
# tibLRLcorr <- copaInt(dataSet, phenotype, tails=tailLRL, corr=TRUE)
# gsTibLRLcorr <- testGScogps(tibLRLcorr, pathGS)
# ## End(Not run)