extractAlleles         package:GeneticsBase         R Documentation

_f_u_n_c_t_i_o_n_s _f_o_r _e_x_t_r_a_c_t_i_n_g _a_l_l_e_l_e _l_e_v_e_l_s, _a_l_l_e_l_e _p_a_i_r_s, _a_n_d _a_l_l_e_l_e _c_o_d_e_s

_D_e_s_c_r_i_p_t_i_o_n:

     functions for extracting allele levels, allele pairs, and allele
     codes

_U_s_a_g_e:

     extractAlleles(object, which = c(1, 2), codes = FALSE,
     allow.partial.missing = FALSE, marker, obs)

_A_r_g_u_m_e_n_t_s:

  object: geneSet object

   which: allele pair number - 1 or 2. Default if both

   codes: If FALSE (default), then calleles are shown as characters,
          else numeric 

allow.partial.missing: Whether partical matching should be allowed (
          default is FALSE) 

  marker: marker names 

     obs: Number of observations (samples) to be displayed. Default is
          all.

_A_u_t_h_o_r(_s):

     Gregory R. Warnes warnes@bst.rochester.edu and Nitin Jain
     nitin.jain@pfizer.com

