validGO: Checks the validity of GO identifiers

In lgatto/yagop: Yet Another Gene Ontology Package

Description

This function checks if a GO identifier is valid by looking it up in the GO.db package's GOTERM term map. Depending whether a namespace is provided, the function will look in one, multiple or all namespaces.

Usage

validGO(goid, namespace)

Arguments

goid	A vector of GO identifier.
namespace	One of several of "CC", "MF" or "BP".

Value

TRUE if goid is a valid GO identifier, FALSE otherwise.

Author(s)

Laurent Gatto

Examples

## GO:0000014 is a valid MF Term
validGO("GO:0000014")
validGO("GO:0000014", "CC")
validGO("GO:0000014", "MF")
validGO("GO:0000014", c("CC", "MF"))
## GO:000000 is not valid
validGO("GO:0000000")
## GO:0000015 is a valid CC Term
validGO(c("GO:0000014", "GO:0000015"))
validGO(c("GO:0000014", "GO:0000015"), "CC")
validGO(c("GO:0000014", "GO:0000015"), "MF")
validGO(c("GO:0000014", "GO:0000015"), c("CC", "MF"))
validGO(c("GO:0000014", "GO:0000000"))

lgatto/yagop documentation built on May 21, 2019, 6:08 a.m.