calculateLOH          package:beadarraySNP          R Documentation

_D_e_t_e_r_m_i_n_e _L_O_H _i_n _e_x_p_e_r_i_m_e_n_t

_D_e_s_c_r_i_p_t_i_o_n:

     Using pairings of normal and tumor samples the LOH pattern is
     determined

_U_s_a_g_e:

     calculateLOH(object, grouping, NorTum = "NorTum", ...)

_A_r_g_u_m_e_n_t_s:

  object: SnpSetIllumina object

grouping: Factor to show which samples belong together (are of the 
          same individual)

  NorTum: character vector or factor. Elements containing "N" are
          considered  to be the normal sample

     ...: extra arguments for 'link{heterozygousSNPs}'

_D_e_t_a_i_l_s:

     ~~ If necessary, more details than the description above ~~

_V_a_l_u_e:

     SnpSetIllumina object with 'loh' and 'nor.gt' matrices in
     assayData.  'loh' is a logical matrix, and 'nor.gt' is a character
     matrix containing the genotypes of the corresponding normal sample

_A_u_t_h_o_r(_s):

     Jan Oosting

_S_e_e _A_l_s_o:

     'SnpSetIllumina-class'

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

