GOBPOFFSPRING               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 _t_o _t_h_e_i_r _B_i_o_l_o_g_i_c_a_l _P_r_o_c_e_s_s _O_f_f_s_p_r_i_n_g

_D_e_s_c_r_i_p_t_i_o_n:

     This data set describes associations between GO molecular function
     (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 environment mapping the GO BP terms to all ancestor
     terms, where an ancestor term is a more specific GO term that is
     preceded by the given GO term in the DAG (in other words, the
     children and all their children, etc.).

_D_e_t_a_i_l_s:

     Each GO BP term is mapped to a vector of offspring 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:<URL:
     http://gopher5/compbio/annotationSourceData/archive.godatabase.org
     /latest/>. Built: 08-Aug-2006

     Package built: Tue Sep  5 18:42:30 2006

_R_e_f_e_r_e_n_c_e_s:

     <URL: http://www.geneontology.org/> and <URL:
     http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene>

_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(GOBPOFFSPRING)
       # Remove GO IDs that do not have any offspring
       xx <- xx[!is.na(xx)]
       if(length(xx) > 0){
         # Get the offspring GO IDs for the first two elents of xx
         goids <- xx[1:2]
       }