invokePhase-methods         package:GGtools         R Documentation

~~ _M_e_t_h_o_d_s _f_o_r _F_u_n_c_t_i_o_n _i_n_v_o_k_e_P_h_a_s_e _i_n _P_a_c_k_a_g_e _G_G_t_o_o_l_s ~~

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

     ~~ Methods for function 'invokePhase' in Package `GGtools' ~~

_M_e_t_h_o_d_s:


     _x = "_s_n_p._m_a_t_r_i_x", _c_n_u_m = "_c_h_r_n_u_m", _p_a_r_m_s_t_r_i_n_g = "_c_h_a_r_a_c_t_e_r", _g_l_o_b_p_n_a_m_e = "_c_h_a_r_a_c_t_e_r", _w_h_e_r_e_2_r_u_n = "_c_h_a_r_a_c_t_e_r", _d_o_P_a_r_s_e = "_l_o_g_i_c_a_l" 
          transform snp.matrix entity to phaseInput (uses tempfile())
          and invokes PHASE


     _x = "_p_h_a_s_e_I_n_p_u_t", _c_n_u_m = "_c_h_r_n_u_m", _p_a_r_m_s_t_r_i_n_g = "_c_h_a_r_a_c_t_e_r", _g_l_o_b_p_n_a_m_e = "_c_h_a_r_a_c_t_e_r", _w_h_e_r_e_2_r_u_n = "_c_h_a_r_a_c_t_e_r", _d_o_P_a_r_s_e = "_l_o_g_i_c_a_l" 
          for prepared 'phaseInput' structure, invoke PHASE


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

     ## Not run: 
     data(smtest)
     invokePhase(smtest, chrnum(20), "", Sys.getenv("PHASE_LOC"),
        ".", TRUE)
     ## End(Not run)

