cdfMergeAlleles          package:affxparser          R Documentation

_F_u_n_c_t_i_o_n _t_o _j_o_i_n _C_D_F _a_l_l_e_l_e _A _a_n_d _a_l_l_e_l_e _B _g_r_o_u_p_s _s_t_r_a_n_d _b_y _s_t_r_a_n_d

_D_e_s_c_r_i_p_t_i_o_n:

     Function to join CDF allele A and allele B groups strand by
     strand.

     This 'function' is design to be used with 'applyCdfGroups'() on an
     Affymetrix Mapping (SNP) CDF 'list' structure.

_U_s_a_g_e:

     cdfMergeAlleles(groups, compReverseBases=FALSE, collapse="", ...)

_A_r_g_u_m_e_n_t_s:

  groups: A 'list' structure with groups.

compReverseBases: If 'TRUE', the group names, which typically are names
          for bases, are turned into their complementary bases for the
          reverse strand.

collapse: The 'character' string used to collapse the allele A and the
          allele B group names.

     ...: Not used.

_D_e_t_a_i_l_s:

     Allele A and allele B are merged into a 'matrix' where first row
     hold the elements for allele A and the second elements for allele
     B.

_V_a_l_u_e:

     Returns a 'list' structure with the two groups 'forward' and
     'reverse', if the latter exists.

_A_u_t_h_o_r(_s):

     Henrik Bengtsson (<URL: http://www.braju.com/R/>)

_R_e_f_e_r_e_n_c_e_s:

     [1] Affymetrix, _Understanding Genotyping Probe Set Structure_,
     2005. <URL:
     http://www.affymetrix.com/support/developer/whitepapers/genotyping_probe_set_structure.affx>

_S_e_e _A_l_s_o:

     'applyCdfGroups'().

