mvaplot.dev               package:xps               R Documentation

_M_v_A _S_c_a_t_t_e_r _P_l_o_t _f_o_r _D_e_v_i_c_e

_D_e_s_c_r_i_p_t_i_o_n:

     Produce scatter plots of M values vs A values of the samples for
     the selected device.

_U_s_a_g_e:

     mvaplot.dev(x, transfo = log2, method = "median", names = "namepart", ylim = c(-6, 6), xlab = "A", ylab = "M", pch = ".", mar = c(3, 3, 2, 1), dev = "screen", outfile = "MvAPlot", w = 540, h = 540, ...)

_A_r_g_u_m_e_n_t_s:

       x: object of class 'ExprTreeSet'.

 transfo: a valid function to transform the data, usually "log2", or
          "0".

  method: method to compute M, "mean" or "median".

   names: optional vector of sample names.

    ylim: range for the plotted M values.

    xlab: a title for the x axis.

    ylab: a title for the y axis.

     pch: either an integer specifying a symbol or a single character
          to be used in plotting points.

     mar: plot margin.

     dev: graphics device to plot to, i.e. one of "screen",
          "jpeg","png", "pdf" or "ps".

 outfile: the name of the output file.

       w: the width of the device in pixels.

       h: the height of the device in pixels.

     ...: optional arguments to be passed to 'plot'.

_D_e_t_a_i_l_s:

     Produces mvaplots for slot 'data' for an object of class
     'ExprTreeSet' for the selected graphics device.

     For 'names=NULL' full column names of slot 'data' will be
     displayed while for  'names="namepart"' column names will be
     displayed without name extension. If 'names' is a vector of column
     names, only these columns will displayed as mvaplot.

_A_u_t_h_o_r(_s):

     Christian Stratowa

_S_e_e _A_l_s_o:

     'mvaplot'

