07.SingleChannel            package:limma            R Documentation

_I_n_d_i_v_i_d_u_a_l _C_h_a_n_n_e_l _A_n_a_l_y_s_i_s _o_f _T_w_o-_C_o_l_o_r _M_i_c_r_o_a_r_r_a_y_s

_D_e_s_c_r_i_p_t_i_o_n:

     This page gives an overview of the LIMMA functions fit linear
     models to two-color microarray data in terms of the
     log-intensities rather than log-ratios.

     The function 'intraspotCorrelation' estimates the intra-spot
     correlation between the two channels. The regression function
     'lmscFit' takes the correlation as an argument and fits linear
     models to the two-color data in terms of the individual
     log-intensities. The output of 'lmscFit' is an 'MArrayLM' object
     just the same as from 'lmFit', so inference proceeds in the same
     way as for log-ratios once the linear model is fitted. See
     06.LinearModels.

     The function 'targetsA2C' converts two-color format target data
     frames to single channel format, i.e, converts from array-per-line
     to channel-per-line, to facilitate the formulation of the design
     matrix.

_A_u_t_h_o_r(_s):

     Gordon Smyth

