GOBPANCESTOR {GO} | R Documentation |
This is an R environment (hash table) mapping GO ids to all the GO ids of their ancestors under biological process (BP). Ancestors are defined as the direct or indirect parent/grand parent nodes of a given node for a GO id based on the directed acyclic graph defined by Gene Ontology Consortium. GO terms for ancestor nodes are more general
GO ids are keys and the corresponding ancestor GO ids are values. Values are vectors of GO ids for all the ancestor of the key GO id. GO ids that do not have any offspring node are assigned NA as the values.
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://www.godatabase.org/dev/database/archive/2004-09-01/go_200409-termdb.xml.gz. Built: 2004-09-01
Package built: Mon Jan 10 19:19:56 2005
http://www.geneontology.org/ and http://www.ncbi.nlm.nih.gov/LocusLink
require("GO", character.only = TRUE) || stop("GO unavailable") # Convert the environment 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] }