SMAPProfile-class            package:SMAP            R Documentation

_C_l_a_s_s "_S_M_A_P_P_r_o_f_i_l_e"

_D_e_s_c_r_i_p_t_i_o_n:

     Holds results from running 'smap'.

_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 as a result
     from running 'smap.'

_S_l_o_t_s:


     '_H_M_M': Object of class '"SMAPHMM"'

     '_o_b_s_e_r_v_a_t_i_o_n_s': Object of class '"SMAPObservations"'

     '_P': Object of class '"numeric"' The log joint posterior
          probability of the state sequence 'Q' and parameters of 'HMM'
          given the 'observations'.

     '_Q': Object of class '"numeric"' The optimal state sequance (path)
          in the HMM.

     '_n_a_m_e': Object of class '"character"' The name of the object.

_M_e_t_h_o_d_s:


     _P 'signature(object = "SMAPProfile")': Returns the log joint
          posterior probability. 

     _Q 'signature(object = "SMAPProfile")': Returns the optimal state
          sequence.

     _H_M_M 'signature(object = "SMAPProfile")': Returns the optimized
          HMM.

     _n_a_m_e 'signature(object = "SMAPProfile")': Returns the name of the
          profile.

     _o_b_s_e_r_v_a_t_i_o_n_s 'signature(object = "SMAPProfile")': Returns the
          observations.

     _p_l_o_t 'signature(x = "SMAPProfile", y = "missing")': A plot method
          for the result profile.

     [ 'signature(x = "SMAPProfile")': Creates a new object of class
          SMAPProfile with extracted elements as specified by the
          indices provided.

_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', 'SMAPProfiles-class'

