topREACTOME.PATHGenes: Present top REACTOME.PATH enrichment test information with...
In GeneAnswers: Integrated Interpretation of Genes

Description Usage Arguments Details Value Author(s) References See Also Examples

Function to present top REACTOME.PATH enichmentInfo of given GeneAnswers instance with genes.

1	topREACTOME.PATHGenes(x, catTerm = TRUE, keepID=TRUE, geneSymbol = TRUE, ...)

`x`	a given GeneAnswers instance with REACTOME.PATH test
`catTerm`	logic value to determine whether mapping REACTOME.PATH IDs to REACTOME.PATH terms
`keepID`	logic, to determine whether keep REACTOME.PATH IDs
`geneSymbol`	logic value to determine whether mapping gene Entrez IDs to gene symbols
`...`	other parameters to transfer to topCategoryGenes

See function topCategoryGenes help for details

print necessary information on the screen and save into a specified file if request.

Gang Feng, Pan Du and Simon Lin

Feng, G., Du, P., Krett, N., Tessel, M., Rosen, S., Kibbe, W.A. and Lin, S.M., 'A collection of bioconductor methods to visualize gene-list annotations', BMC Research Notes 2010, 3:10

topCategoryGenes

1 2	##x is a GeneAnswers instance with REACTOME.PATH test ## Not run: topREACTOME.PATHGenes(x, geneSymbol=TRUE, orderby='pvalue', top=10, topGenes='ALL', genesOrderBy='pValue', file=TRUE)

GeneAnswers documentation built on Nov. 8, 2020, 4:53 p.m.