neveCGHmatch            package:Neve2006            R Documentation

_N_e_v_e _C_a_n_c_e_r _C_e_l_l _2_0_0_6 _e_x_p_r_e_s_s_i_o_n _p_l_u_s _C_G_H _d_a_t_a

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

     ExpressionSet and cghSet

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

     data(neveCGHmatch)
     data(neveRMAmatch)
     data(neveExCGH)

_F_o_r_m_a_t:

     The individual datasets (aCGH and expression assays) take the form
     of a cghSet for neveCGHmatch and an ExpressionSet for
     neveRMAmatch.  There are only 50 samples because only 50 could be
     aligned on the given sample name tokens in the caArrayDB data as
     of June 9 2007. Those sample name tokens are very mangled in the
     CEL files.

     The combined data structure 'neveExCGH' has a special container
     class 'cghExSet'.

_S_o_u_r_c_e:

     links are provided in the pdf of the Cancer Cell paper; see the
     PMID of 'experimentData(neveCGHmatch)'

_R_e_f_e_r_e_n_c_e_s:

     PMID 17157791

_E_x_a_m_p_l_e_s:

     data(neveCGHmatch)
     neveCGHmatch
     logRatios(neveCGHmatch)[1:4,1:4]
     data(neveRMAmatch)
     neveRMAmatch

