agCHRLOC                package:ag.db                R Documentation

_M_a_p _M_a_n_u_f_a_c_t_u_r_e_r _I_D_s _t_o _C_h_r_o_m_o_s_o_m_a_l _L_o_c_a_t_i_o_n

_D_e_s_c_r_i_p_t_i_o_n:

     agCHRLOC is an R object that maps manufacturer identifiers to the
     starting position of the gene. The position of a gene is measured
     as the number of base pairs.

_D_e_t_a_i_l_s:

     Each manufacturer identifier maps to a named vector of chromosomal
     locations, where the name indicates the chromosome. Due to
     inconsistencies that may exist at the time the object was built,
     these vectors may contain more than one chromosome and/or
     location. If the chromosomal location is unknown, the vector will
     contain an 'NA'.

     Chromosomal locations on both the sense and antisense strands are
     measured as the number of base pairs from the p (5' end of the
     sense strand) to q (3' end of the sense strand) arms. Chromosomal
     locations on the antisense strand have a leading "-" sign (e. g.
     -1234567). 

     Mappings were based on data provided by: Tair (
     ftp://ftp.arabidopsis.org/Maps/seqviewer_data/sv_gene.data ) on
     2007-Oct04

_E_x_a_m_p_l_e_s:

             x <- agCHRLOC
             # Get the probe identifiers that are mapped to chromosome locations
             mapped_probes <- mappedkeys(x)
             # Convert to a list
             xx <- as.list(x[mapped_probes])
             if(length(xx) > 0) {
               # Get the CHRLOC for the first five probes
               xx[1:5]
               # Get the first one
               xx[[1]]
             }

