interactiveCNselect       package:beadarraySNP       R Documentation

_I_n_t_e_r_a_c_t_i_v_e _a_s_s_i_g_n_m_e_n_t _o_f _c_o_p_y_n_u_m_b_e_r_s _t_o _g_e_n_o_m_i_c _s_e_g_m_e_n_t_s

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

     This function plots the genomic view of a sample, and allows the
     assignment of a discrete copy number to each segment

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

     interactiveCNselect(object, sample = 1, dnaIndex)

_A_r_g_u_m_e_n_t_s:

  object: class 'SnpSetIllumina' after segmentation

  sample: Sample identifier within 'object'

dnaIndex: numeric, measured DNA index of the sample (1=normal)

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

     The user can interactively assign discrete, integer copy number
     values to each segment. This is done by either clicking in the
     lower part of a panel to decrease the copy number, or  in the
     higher part of a panel to increase the copy number. The order of
     copy number values is  always maintained; a segment with a lower
     raw value can not get a higher copy number assigned then a segment
     with a higher raw copy number value.

_V_a_l_u_e:

     list, see 'createCNSummary'

_A_u_t_h_o_r(_s):

     Jan Oosting

_S_e_e _A_l_s_o:

     'segmentate, alterCN, plotGoldenGate4OPA createCNSummary'

