states.hmm.func             package:aCGH             R Documentation

_A _f_u_n_c_t_i_o_n _t_o _f_i_t _u_n_s_u_p_e_r_v_i_s_e_d _H_i_d_d_e_n _M_a_r_k_o_v _m_o_d_e_l

_D_e_s_c_r_i_p_t_i_o_n:

     This function is a workhorse of 'find.hmm.states'. It operates on
     the individual chromosomes/samples and is not called directly by
     users.

_U_s_a_g_e:

     states.hmm.func(sample, chrom, dat, datainfo = clones.info, vr = 0.01,
                     maxiter = 100, aic = FALSE, bic = TRUE, delta = 1,
                     nlists = 1, eps = .01, print.info = FALSE,
                     diag.prob = .99)

_A_r_g_u_m_e_n_t_s:

  sample: ~~Describe 'sample' here~~ 

   chrom: ~~Describe 'chrom' here~~ 

     dat: ~~Describe 'dat' here~~ 

datainfo: ~~Describe 'datainfo' here~~ 

      vr: ~~Describe 'vr' here~~ 

 maxiter: ~~Describe 'maxiter' here~~ 

     aic: ~~Describe 'aic' here~~ 

     bic: ~~Describe 'bic' here~~ 

   delta: ~~Describe 'delta' here~~ 

  nlists: ~~Describe 'nlists' here~~ 

     eps: parameter controlling the convergence of the EM algorithm. 

print.info: print.info = T allows diagnostic information to be printed
          on the screen. 

diag.prob: parameter controlling the construction of the initial
          transition probability matrix. 

_S_e_e _A_l_s_o:

     'aCGH'

