DNAcopy-internal           package:DNAcopy           R Documentation

_I_n_t_e_r_n_a_l _D_N_A_c_o_p_y _f_u_n_c_t_i_o_n_s

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

     Internal functions of package DNAcopy.

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

     changepoints(genomdat, data.type = "logratio", alpha = 0.01, sbdry, sbn,
                      nperm = 10000, p.method="hybrid", min.width=2, kmax=25,
                      nmin = 200, trimmed.SD = NULL, undo.splits = "none",
                      undo.prune = 0.05, undo.SD = 3, verbose = 1, ngrid=100,
                      tol=1e-6) 
     changepoints.prune(genomdat, lseg, change.cutoff=0.05)
     changepoints.sdundo(genomdat, lseg, trimmed.SD, change.SD=3)
     trimmed.variance(genomdat, trim=0.025)
     inflfact(trim)
     exon.changepoint(exondat, ngrid=100, tol=1e-6)

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

     These are not to be called directly by the user

