agPATH2PROBE               package:ag               R Documentation

_M_a_p _b_e_t_w_e_e_n _K_y_o_t_o _E_n_c_y_c_l_o_p_e_d_i_a _o_f _G_e_n_e_s _a_n_d _G_e_n_o_m_e_s (_K_E_G_G)
_p_a_t_h_w_a_y _i_d_e_n_t_i_f_i_e_r_s _a_n_d _M_a_n_u_f_a_c_t_u_r_e_r _I_d_e_n_t_i_f_i_e_r_s

_D_e_s_c_r_i_p_t_i_o_n:

     agPATH2PROBE is an R environment that provides mappings between
     KEGG identifiers and manufacturer identifiers.

_D_e_t_a_i_l_s:

     Each KEGG identifier is mapped to a named vector of manufacturer
     identifiers. The name represents the KEGG identifier and the
     vector contains all manufacturer identifiers that are found in
     that particular pathway. An 'NA' is reported for any KEGG
     identifier that cannot be mapped to any manufacturer identifiers.

     Pathway name for a given pathway identifier can be obtained using
     the KEGG data package that can either be built using AnnBuilder or
     downloaded from Bioconductor <URL: http://www.bioconductor.org>.

     Graphic presentations of pathways are searchable at <URL:
     http://www.genome.ad.jp/kegg/pathway.html> using pathway
     identifiers as keys.

     Mappings were based on data provided by:

     Tair: <URL:
     ftp://ftp.arabidopsis.org/home/tair//ath/ath_gene_map.tab> Built:
     N/A

     Tair: <URL:
     ftp://ftp.arabidopsis.org/home/tair/Microarrays/Affymetrix/affy_AG
     _array_elements-2006-07-14.txt> Tair: <URL:
     ftp://ftp.arabidopsis.org/home/tair/Genes/TAIR_sequenced_genes>
     Tair: <URL:
     ftp://ftp.arabidopsis.org/home/tair/User_Requests/LocusPublished.0
     8012006.txt> Built: N/A

     Package built Wed Sep  6 11:22:37 2006

_R_e_f_e_r_e_n_c_e_s:

     <URL: http://www.genome.ad.jp/kegg/>

_E_x_a_m_p_l_e_s:

         # Convert the environment to a list
         xx <- as.list(agPATH2PROBE)
         # Remove pathway identifiers that do not map to any probe id
         xx <- xx[!is.na(xx)]
         if(length(xx) > 0){
             # The probe identifiers for the first two elements of XX
             xx[1:2]
             # Get the first one
             xx[[1]]
         } 

