geneSet2Ped           package:GeneticsBase           R Documentation

_T_r_a_n_s_l_a_t_e _a _g_e_n_e_S_e_t _o_b_j_e_c_t _t_o _a _p_e_d _m_a_t_r_i_x

_D_e_s_c_r_i_p_t_i_o_n:

     Translate a geneSet object to a ped matrix.

_U_s_a_g_e:

       geneSet2Ped(geneSetObj)

_A_r_g_u_m_e_n_t_s:

geneSetObj: an object of geneSet class

_V_a_l_u_e:

     A list with five elements: 'ped', 'columns', 'markerNames',
     'Position', and 'fileName'. 'ped' is a pedigree data frame whose
     first 6 columns are family (pedigree id), pid (patient id), father
     (father id), mother (mother id), sex, affected (affection status).
     The remaining columns are pairs of marker alleles. Each row
     corresponds to an individual; 'columns' are the names of the first
     5 (or 6) columns of ped file. It should be either equal to 
     c("family","pid","father","mother","sex","affected") or equal to
     c("family","pid","father","mother","sex"); 'founderOnly' indicates
     if using only founder info; 'markerNames' is a vector of marker
     names; 'Position' is a vector of marker positions; 'fileName' is
     the pedigree file name.

_A_u_t_h_o_r(_s):

     Weiliang Qiu stwxq@channing.harvard.edu,  Ross Lazarus
     ross.lazarus@channing.harvard.edu,  Gregory Warnes
     warnes@bst.rochester.edu, Nitin Jain nitin.jain@pfizer.com

_E_x_a_m_p_l_e_s:

       data(CAMP)
       res<-geneSet2Ped(CAMP)
       res$ped[1:5,]
       res$columns
       res$markerNames
       res$Position
       res$fileName
       

