GSEAresultTable: Form a table for GSEA results

Description Usage Arguments Value Author(s) See Also Examples

Description

Form a table for GSEA results.

Usage

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GSEAresultTable(gene.set, GSDesc = FALSE)

Arguments

gene.set

a SeqGeneSet object after running GSEnrichAnalyze.

GSDesc

logical indicating whether to output gene set descriptions. default: FALSE

Value

A data frame containing columns of GSName, GSSize, ES, ES.pos, pval, FDR, and FWER.

Author(s)

Xi Wang, xi.wang@newcastle.edu.au

See Also

GSEnrichAnalyze, topGeneSets

Examples

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data(DEscore, package="SeqGSEA")
data(DSscore, package="SeqGSEA")
gene.score <- geneScore(DEscore, DSscore, method="linear", DEweight = 0.3)
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")
GS_example <- GSEnrichAnalyze(GS_example, gene.score, gene.score.perm)
head(GSEAresultTable(GS_example))


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