getTransitionProbability     package:VanillaICE     R Documentation

_T_r_a_n_s_i_t_i_o_n _p_r_o_b_a_b_i_l_i_t_i_e_s _f_o_r _t_h_e _H_M_M

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

     The default transition probabilities for the HMM can be a matrix
     with dimension S x S, where S is the number of hidden states.
     Alternatively, one may specify transition probabilities that are a
     function of the distance (in base pairs) between adjacent SNPs.

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

     getTransitionProbability(object)

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

  object: An object of one of the HMM classes defined in 'ICE'

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

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

     A transition probability matrix.

_N_o_t_e:

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

_R_e_f_e_r_e_n_c_e_s:

     RB Scharpf et al. (2007), Department of Biostatistics Working
     Papers, Working Paper 136 and CITATION FOR MA NEWTON PAPER

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

     'distance'

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

