Generally Applicable Gene-set Enrichment for Pathway Analysis

Documentation for package ‘gage’ version 2.42.0

bods	Common gene set data collections
carta.gs	Common gene set data collections
eg2sym	Conversion between Entrez Gene IDs and official gene symbols for human genes.
egSymb	Mapping between Entrez Gene IDs and official symbols
esset.grp	The non-redundant signcant gene set list
essGene	Essential member genes in a gene set
gage	GAGE (Generally Applicable Gene-set Enrichment) analysis
gageComp	Compare multiple GAGE analyses results
gagePipe	GAGE analysis pipeline
gagePrep	GAGE (Generally Applicable Gene-set Enrichment) analysis
gageSum	GAGE (Generally Applicable Gene-set Enrichment) analysis
geneData	View the expression data for selected genes
go.gs	Common gene set data collections
go.gsets	Generate up-to-date GO (Gene Ontology) gene sets
gs.KSTest	Gene set differential expression test
gs.tTest	Gene set differential expression test
gs.zTest	Gene set differential expression test
gse16873	GSE16873: a breast cancer microarray dataset
heter.gage	GAGE analysis for heterogeneous data
kegg.gs	Common gene set data collections
kegg.gs.dise	Common gene set data collections
kegg.gsets	Generate up-to-date KEGG pathway gene sets
khier	Common gene set data collections
korg	Common gene set data collections
pairData	GAGE analysis for heterogeneous data
readExpData	Read in expression data
readList	Read in gene set data as a named list
sigGeneSet	Significant gene set from GAGE analysis
sym2eg	Conversion between Entrez Gene IDs and official gene symbols for human genes.