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]]])
       }

