goIdToTerm: Convert GO ids to/from terms

In lgatto/pRoloc: A unifying bioinformatics framework for spatial proteomics

Convert GO ids to/from terms

Description

Converts GO identifiers to/from GO terms, either explicitly or by checking if (any items in) the input contains "GO:".

Usage

goIdToTerm(x, names = TRUE, keepNA = TRUE)

goTermToId(x, names = TRUE, keepNA = TRUE)

flipGoTermId(x, names = TRUE, keepNA = TRUE)

prettyGoTermId(x)

Arguments

x	A character of GO ids or terms.
names	Should a named character be returned? Default is TRUE.
keepNA	Should any GO term/id names that are missing or obsolete be replaced with a NA? Default is TRUE. If FALSE then the GO term/id names is kept.

Value

A character of GO terms (ids) if x were ids (terms).

Author(s)

Laurent Gatto

Examples

goIdToTerm("GO:0000001")
goIdToTerm("GO:0000001", names = FALSE)
goIdToTerm(c("GO:0000001", "novalid"))
goIdToTerm(c("GO:0000001", "GO:0000002", "notvalid"))
goTermToId("mitochondrion inheritance")
goTermToId("mitochondrion inheritance", name = FALSE)
goTermToId(c("mitochondrion inheritance", "notvalid"))
prettyGoTermId("mitochondrion inheritance")
prettyGoTermId("GO:0000001")
flipGoTermId("mitochondrion inheritance")
flipGoTermId("GO:0000001")
flipGoTermId("GO:0000001", names = FALSE)

lgatto/pRoloc documentation built on Nov. 27, 2024, 12:14 a.m.