File: GOMFCHILDREN.Rd

package info (click to toggle)
r-bioc-go.db 3.12.1-1
 123456789101112131415161718192021222324252627282930313233343536373839404142434445464748495051525354555657585960 \name{GOMFCHILDREN} \alias{GOMFCHILDREN} \title{Annotation of GO Identifiers to their Molecular Function Children} \description{ This data set describes associations between GO molecular function (MF) terms and their direct children MF terms, based on the directed acyclic graph (DAG) defined by the Gene Ontology Consortium. The format is an R object mapping the GO MF terms to all direct children terms, where a direct child term is a more specific GO term that is immediately preceded by the given GO term in the DAG. } \details{ Each GO MF term is mapped to a vector of children GO MF terms. Molecular function is defined as the tasks performed by individual gene products; examples are transcription factor and DNA helicase as defined by Gene Ontology Consortium. Mappings were based on data provided by: Gene Ontology http://current.geneontology.org/ontology/go-basic.obo With a date stamp from the source of: 2020-09-10 } \references{ \url{http://www.geneontology.org/} and \url{https://www.ncib.nlm.nih.gov/entrez/query.fcgi?db=gene} } \seealso{ \itemize{ \item \code{\link[AnnotationDbi]{AnnotationDb-class}} for use of the \code{select()} interface. } } \examples{ ## select() interface: ## Objects in this package can be accessed using the select() interface ## from the AnnotationDbi package. See ?select for details. ## Bimap interface: # Convert the object to a list xx <- as.list(GOMFCHILDREN) # Remove GO identifiers that do not have any children xx <- xx[!is.na(xx)] if(length(xx) > 0){ # Get the children GO identifiers for the first elents of xx goids <- xx[[1]] # Find out the GO terms for the first parent goid GOID(GOTERM[[goids[1]]]) Term(GOTERM[[goids[1]]]) Synonym(GOTERM[[goids[1]]]) Secondary(GOTERM[[goids[1]]]) Definition(GOTERM[[goids[1]]]) Ontology(GOTERM[[goids[1]]]) } } \keyword{datasets}