GOCCCHILDREN               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
_d_i_r_e_c_t _c_h_i_l_e_r_e_n

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

     This is an R environment (hash table) mapping GO ids to the GO ids
     of their direct children under cellular component (CC). Direct
     children of a given GO id are those GO ids correponding to all the
     children nodes that have direct link to the node for the GO id of
     concern based on the directed acyclic graph defined by Gene
     Ontology Consortium. GO terms for children nodes are more specific
     than that for the parents

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

     GO ids are keys and the corresponding children GO ids are values.
     Values are vectors of length 1 or greater depending on whether the
     GO id of concern has only one or more children. GO ids that do not
     have any child node are assigned NA as the values.

     Cellular component is defined as the subcellular structures,
     locations, and macromolecular complexes; examples include nucleus,
     telomere, and origin recognition complex as defined b y 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")
       require("annotate", character.only = TRUE) || stop("annoate unavailable")
       # Convert the environment object to a list
       xx <- as.list(GOCCCHILDREN)
       # Remove GO ids that do not have any children
       xx <- xx[!is.na(xx)]
       if(length(xx) > 0){
         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]]])
       }

