hsahomologyLL2HGID        package:hsahomology        R Documentation

_M_a_p_p_i_n_g_s _b_e_t_w_e_e_n _p_u_b_l_i_c _d_a_t_a_b_a_s_e _i_d_s _a_n_d _N_C_B_I'_s _I_n_t_e_r_n_a_l
_H_o_m_o_l_o_G_e_n_e_I_D_s _f_o_r _H_o_m_o _s_a_p_i_e_n_s

_D_e_s_c_r_i_p_t_i_o_n:

     Provides mappings between public database ids and internal
     HomoloGeneIDs (HGID) used by NCBI to represent sequences for Homo
     sapiens. Public database ids include LocusLink ids (LL) and
     GenBank Accesion/RefSeq numbers (ACC).

_D_e_t_a_i_l_s:

     Each object is an environment object with key and value pairs.
     Keys are ids specified by the abbreviation proceeding the number 2
     of the name of an object (e.g. LL in hsahomologyLL2HGID) and
     values are ids specified by the abbreviation following the number
     2 (e.g. HGID in hsahomologyLL2HGID). Values may be vectors of
     length 1 or greater depending on whether a key id can be mapped to
     only one or more other ids. Vector names are the code used by NCBI
     for various organism.

     hsahomologyLL2HGID or hsahomologyACC2HGID can be used to find the
     HomoloGeneIDs for a give LocusLink id or GenBank/RefSeq accession
     number and then the data for homologous genes found in other
     organisms.  

     Mappings contained were based on data provided by HomoloGene.

     HomoloGene:<URL: 
     ftp://ftp.ncbi.nih.gov/pub/HomoloGene/old/hmlg.ftp>. Built:
     HomoloGene built date not available

     Packagebuilt Fri Jan  7 09:30:30 2005

_R_e_f_e_r_e_n_c_e_s:

     <URL: http://www.ncbi.nih.gov/entrez/query.fcgi?db=homologene>

_E_x_a_m_p_l_e_s:

         require("annotate") || stop("annotate unavailable")
         xx <- as.list(hsahomologyLL2HGID)
             if(length(xx) > 5){
                     # Get the value of the first key
                     xx[2]
                     # Get the value for a few keys
                     if(length(xx) >= 3){
                             xx[2:4]
                     }
             }

