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GO.db

Source: R/go_database_class.R
GO_database.Rd

Retrieve a table from the Gene Ontology using the GO.db package.

Usage

GO_database(source = "GO.db", table = "GOBPOFFSPRING", ...)

Arguments

source

(character) The name of an AnnotationDb package to import the specified table from. Note the package should already be installed. The default is "GO.db".

table

(character) The name of a table to import from the GO.db package. Allowed tables include: GOBPANCESTOR,GOBPPARENTS,GOBPCHILDREN,GOBPOFFSPRING (and their CC or MF equivalents), GOTERM, GOSYNONYM, GOOBSOLETE. The default is "GOBPOFFSPRING".

...

Additional slots and values passed to struct_class.

Value

A GO_database object. This object has no output slots.

Details

This object makes use of functionality from the following packages:

  • GO.db

Inheritance

A GO_database object inherits the following struct classes:

[GO_database] -> [AnnotationDb_database] -> [annotation_database] -> [annotation_source] -> [struct_class]

References

Carlson M (2023). GO.db: A set of annotation maps describing the entire Gene Ontology. R package version 3.18.0.

Pagès H, Carlson M, Falcon S, Li N (2023). AnnotationDbi: Manipulation of SQLite-based annotations in Bioconductor. doi:10.18129/B9.bioc.AnnotationDbi https://doi.org/10.18129/B9.bioc.AnnotationDbi, R package version 1.64.1, https://bioconductor.org/packages/AnnotationDbi.

See also

GO.db::GO()

Other annotation databases: AnnotationDb_database, annotation_database, annotation_source, excel_database, rdata_database, rds_cache, rds_database

Examples

M = GO_database( table = "GOBPCHILDREN", tag = character(0), data =
data.frame(id=NA), source = character(0))