hgfocusCHRLOC            package:hgfocus            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:

     hgfocusCHRLOC is an R environment that maps manufacturer ids 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 id maps to a named vector of chromosomal
     locations, where the name indicates the chromosome. Due to
     inconsistencies that may exist at the time the environment 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:

     Golden Path:<URL:
     http://gopher5/compbio/annotationSourceData/hgdownload.cse.ucsc.ed
     u/goldenPath/currentGenomes//Homo_sapiens/database/>. Built:
     currentGenomes//Homo_sapiens

     Package built Tue Oct  4 19:23:30 2005

_E_x_a_m_p_l_e_s:

         # Covert to a list
         xx <- as.list(hgfocusCHRLOC)
         # Remove probe ids that do not map to any CHRLOC
         xx <- xx[!is.na(xx)]
         if(length(xx) > 0){
             # Gets the location for the first five probes
             xx[1:5]
             # Gets the first one
             xx[[1]]
         }

