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
     7.Diagnostics.

