SMAPHMM-class              package:SMAP              R Documentation

_C_l_a_s_s "_S_M_A_P_H_M_M": _A _c_l_a_s_s _t_o _m_a_n_a_g_e _H_M_M_s _f_o_r _t_h_e _S_M_A_P _p_a_c_k_a_g_e

_D_e_s_c_r_i_p_t_i_o_n:

     Holds parameters for a Hidden Markov Model (HMM) used in the
     'SMAP' package.

_O_b_j_e_c_t_s _f_r_o_m _t_h_e _C_l_a_s_s:

     Objects are not intended to be created directly but via the
     constructor function 'SMAPHMM'.

_S_l_o_t_s:


     '_A': Object of class '"matrix"' The transition probability matrix
          between states.

     '_P_i': Object of class '"numeric"' The initial probabilities of
          starting in a certain state.

     '_P_h_i': Object of class '"matrix"' A matrix that specifies the
          paramaters of Gaussian distributions associated with each
          hidden state. The first column specifies standard deviations,
          the second specifies means.

     '_n_o_S_t_a_t_e_s': Object of class '"numeric"' The number of hidden
          states in the HMM.

_M_e_t_h_o_d_s:


     _A 'signature(object = "SMAPHMM")': Returns the transition matrix.

     _P_i 'signature(object = "SMAPHMM")': Returns the initial
          probabilities.

     _P_h_i 'signature(object = "SMAPHMM")': Returns the distribution
          parameter matrix.

     _n_o_S_t_a_t_e_s 'signature(object = "SMAPHMM")': Returns the number of
          hidden states in the HMM.

_A_u_t_h_o_r(_s):

     Robin Andersson, robin.andersson@lcb.uu.se

_R_e_f_e_r_e_n_c_e_s:

     Andersson, R., Bruder, C. E. G., Piotrowski, A., Menzel, U., Nord,
     H., Sandgren, J., Hvidsten, T. R., Diaz de Stahl, T., Dumanski, J.
     P., Komorowski, J., A Segmental Maximum A Posteriori Approach to
     Array-CGH Copy Number Profiling, submitted

_S_e_e _A_l_s_o:

     'smap', 'SMAPHMM'

