significance: Significance level computation in GSEA

In GSEArot: GSEA rotation

Description

Ccomputes a p-value for a gene set.

Usage

significance(ES, ESnull, doplot = FALSE)

Arguments

ES	Observed enrichment score.
ESnull	Null distribution.
doplot	If TRUE, a histogram over the normalised null distribution is drawn. Default is FALSE.

Details

Function that computes a p-value for a gene set given an enrichment score and a null distribution. Calculations are done separately for positive and negative enrichment scores. The function also returns normalised observed enrichment score and normalised null distribution for the gene set. In addition, a histogram over the normalised null distribution can be plotted.

Value

p.value	p-value for the gene set.
NES	Normalised observed enrichment score.
NESnull	Normalised estimated null distribution.

Author(s)

Guro D\orum

Examples

##---- Should be DIRECTLY executable !! ----
##-- ==>  Define data, use random,
##--    or do  help(data=index)  for the standard data sets.

## The function is currently defined as

GSEArot documentation built on May 2, 2019, 4:56 p.m.