getCategoryList: Retrieve categories containing given genes

In GeneAnswers: Integrated Interpretation of Genes

Description

Function to retrieve specified category IDs containing given genes.

Usage

getCategoryList(geneVector, lib, categoryType)

Arguments

geneVector	an Entrez gene IDs vector
lib	annotation library to be used to retrieve categories terms.
categoryType	type of category

Details

The current version only supports Bioconductor team maintained annotation libraries, like 'org.Bt.eg.db', 'org.Ce.eg.db', 'org.Cf.eg.edu', 'org.Dm.eg.db', 'org.Dr.eg.db', 'org.EcK12.eg.db', 'org.EcSakai.eg.db', 'org.Gg.eg.db', 'org.Hs.eg.db', 'org.Mm.eg.db', 'org.Rn.eg.db' and 'org.Ss.eg.db'.

Value

return a category list, names of the list are category IDs and elements are genes IDs.

Author(s)

Gang Feng, Pan Du and Simon Lin

References

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

Examples

getCategoryList(c('56458', '16590'), 'org.Mm.eg.db', 'PATH')

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