compareSemmentations         package:snapCGH         R Documentation

_F_u_n_c_t_i_o_n _f_o_r _c_o_m_p_a_r_i_n_g _s_e_g_m_e_n_t_a_t_i_o_n _m_e_t_h_o_d_s _t_o _a _k_n_o_w_n _t_r_u_t_h

_D_e_s_c_r_i_p_t_i_o_n:

     This function takes a SegList and compares the breakpoints
     indicated in other SegLists with this original one.

_U_s_a_g_e:

     compareSegmentations(TrueSeg,offset = 0,...)

_A_r_g_u_m_e_n_t_s:

 TrueSeg: An object of class 'SegList' which is scored against.
          Normally the output from 'simulateData'.

  offset: Integer value between 0 and 2 specifying how close (in number
          of clones) to a true breakpoint the segmentation method must
          be before it is scored.

     ...: One or more objects of class 'SegList'.  These are compared
          to TrueSeg.

_V_a_l_u_e:

     The method returns a list containing two  matrices.  The first of
     these, $TPR, contains the true positive rate,  whilst the second,
     $FDR, holds the false discovery rate.  Both of these matrices are
     arranged such that a row represents a segmentation method and 
     each column is an array.

_A_u_t_h_o_r(_s):

     John Marioni and Mike Smith

