plotES: Plot the distribution of enrichment scores

Description Usage Arguments Author(s) See Also Examples

Description

This function is to plot the distribution of enrichment scores, with comparison with permutation enrichment scores.

Usage

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plotES(gene.set, pdf = NULL)

Arguments

gene.set

a SeqGeneSet object after running GSEnrichAnalyze.

pdf

whether to save the plot to PDF file; if yes, provide the name of the PDF file.

Author(s)

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

See Also

GSEnrichAnalyze, plotSigGeneSet

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)
plotES(GS_example) 


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