agCHR                   package:ag                   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_e_s

_D_e_s_c_r_i_p_t_i_o_n:

     agCHR is an R environment that provides mappings between a
     manufacturer identifier and the chromosome that contains the gene
     of interest.

_D_e_t_a_i_l_s:

     Each manufacturer identifier maps to a vector of chromosomes. Due
     to inconsistencies that may exist at the time the environment was
     built, the vector may contain more than one chromosome (e.g., the
     identifier may map to more than one chromosome). If the
     chromosomal location is unknown, the vector will contain an 'NA'.

     Mappings were based on data provided by:

     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

_E_x_a_m_p_l_e_s:

             # Convert to a list
             xx <- as.list(agCHR)
             # Remove probe identifiers that do not map to any CHRLOC
             xx <- xx[!is.na(xx)]
             if(length(xx) > 0){
                 # Get the chromosome number for the first five probes
                 xx[1:5]
                 # Get the first one
                 xx[[1]]
             }

