File: GOBPANCESTOR.Rd

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r-bioc-go.db 3.12.1-1
 123456789101112131415161718192021222324252627282930313233343536373839404142434445464748495051525354 \name{GOBPANCESTOR} \alias{GOBPANCESTOR} \title{Annotation of GO Identifiers to their Biological Process Ancestors} \description{ This data set describes associations between GO Biological Process (BP) terms and their ancestor BP terms, based on the directed acyclic graph (DAG) defined by the Gene Ontology Consortium. The format is an R object mapping the GO BP terms to all ancestor terms, where an ancestor term is a more general GO term that precedes the given GO term in the DAG (in other words, the parents, and all their parents, etc.). } \details{ Each GO BP term is mapped to a vector of ancestor GO BP terms. Biological process is defined as the broad biological goals, such as mitosis or purine metabolism, that are accomplished by ordered assemblies of molecular functions 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(GOBPANCESTOR) # Remove GO IDs that do not have any ancestor xx <- xx[!is.na(xx)] if(length(xx) > 0){ # Get the ancestor GO IDs for the first two elents of xx goids <- xx[1:2] } } \keyword{datasets}