plotPrintTipLoess           package:limma           R Documentation

_M_A _P_l_o_t_s _b_y _P_r_i_n_t-_T_i_p _G_r_o_u_p

_D_e_s_c_r_i_p_t_i_o_n:

     Creates a coplot giving MA-plots with loess curves by print-tip
     groups.

_U_s_a_g_e:

     plotPrintTipLoess(object,layout,array=1,span=0.4,...)

_A_r_g_u_m_e_n_t_s:

  object: 'MAList' or 'RGList' object or list with components 'M'
          containing log-ratios and 'A' containing average intensities

  layout: a list specifying the number of tip rows and columns and the
          number of spot rows and columns printed by each tip. Defaults
          to 'MA$printer' if that is non-null.

   array: integer giving the array to be plotted. Corresponds to
          columns of 'M' and 'A'.

    span: span of window for 'lowess' curve

     ...: other arguments passed to 'panel.smooth'

_D_e_t_a_i_l_s:

     Note that spot quality weights in 'object' are not used for
     computing the loess curves for this plot even though such weights
     would be used for loess normalization using
     'normalizeWithinArrays'.

_V_a_l_u_e:

     A plot is created on the current graphics device. If there are
     missing values in the data, then the vector of row numbers for
     spots with missing values is invisibly returned, as for 'coplot'.

_A_u_t_h_o_r(_s):

     Gordon Smyth

_S_e_e _A_l_s_o:

     An overview of diagnostic functions available in LIMMA is given in
     09.Diagnostics.