calES.perm: Calculate enrichment scores for gene sets in the permutation...

In SeqGSEA: Gene Set Enrichment Analysis (GSEA) of RNA-Seq Data: integrating differential expression and splicing

Description

This is an internal function to calculate enrichment scores for gene sets in the permutation data sets.

Usage

calES.perm(gene.set, gene.score.perm, weighted.type = 1)

Arguments

gene.set	a SeqGeneSet object.
gene.score.perm	a matrix of gene scores on the permutation data sets.
weighted.type	gene score weight type.

Author(s)

Xi Wang, [e-mail]

See Also

GSEnrichAnalyze, calES,

Examples

data(DEscore.perm, package="SeqGSEA")
data(DSscore.perm, package="SeqGSEA")
gene.score.perm <- genePermuteScore(DEscore.perm, DSscore.perm, method="linear",  DEweight=0.3)
data(GS_example, package="SeqGSEA")
ES.perm <- calES.perm(GS_example, gene.score.perm)
ES.perm[1:5,1:5]

SeqGSEA documentation built on Nov. 8, 2020, 5:46 p.m.