GOMFANCESTOR               package:GO               R Documentation

_A_n_n_o_t_a_t_i_o_n _o_f _G_O _i_d_e_n_t_i_f_i_e_r_s _b_y _t_h_e _G_O _i_d_e_n_t_i_f_i_e_r_s _o_f _t_h_e_i_r
_a_n_c_e_s_t_o_r_s

_D_e_s_c_r_i_p_t_i_o_n:

     This is an R environment (hash table) mapping GO ids to all the GO
     ids of their ancestors under molecular function (MF). 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

_D_e_t_a_i_l_s:

     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.  

     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:

     Gene Ontology:<URL:
     http://www.godatabase.org/dev/database/archive/2004-09-01/go_20040
     9-termdb.xml.gz>. Built: 2004-09-01

     Package built: Mon Jan 10 19:19:56 2005

_R_e_f_e_r_e_n_c_e_s:

     <URL: http://www.geneontology.org/> and <URL:
     http://www.ncbi.nlm.nih.gov/LocusLink>

_E_x_a_m_p_l_e_s:

       require("GO", character.only = TRUE) || stop("GO unavailable")
       # Convert the environment object to a list
       xx <- as.list(GOMFANCESTOR)
       # 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]
       }

