GeneAnswers (version 2.14.0)

getCategoryTerms: Mapping Category IDs to Terms

Description

Function to map category IDs to category terms.

Usage

getCategoryTerms(catIDs, catType, strict = FALSE, missing=c('name', 'keep', 'remove'), nameLength='all', addID=FALSE)

Arguments

catIDs

a character vector containing category IDs

catType

type of category

strict

logic value to stop conversion if NA is introduced.

missing

type of handling NA mapping.

nameLength

show how many first letters for long term names, 'all' for full name

addID

logic, add term IDs following term names or not

Value

return category terms of given category IDs.

Details

The current version only supports 'GO', 'DOLITE', 'KEGG', 'REACTOME.PATH' and 'CABIO.PATH'. There are three types of parameters for variable 'missing'. 'name' means the NA mapping values are replaced by their names. 'keep' means all of NA values are kept. 'remove' means all of NA values are removed.

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

getCategoryTerms(c("04640", "05221", "05215"), catType='KEGG')