boxplot-methods             package:lumi             R Documentation

_b_o_x_p_l_o_t _o_f _a _E_x_p_r_e_s_s_i_o_n_S_e_t _o_b_j_e_c_t

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

     Creating 'boxplot' of sample intensities in a ExpressionSet object

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

     ## S4 method for signature 'ExpressionSet':
     boxplot(x, range = 0, main, logMode = TRUE, subset = 5000, seed = 123, ...)

_A_r_g_u_m_e_n_t_s:

       x: a 'ExpressionSet' object

   range: parameter of 'boxplot' 

    main: title of the boxplot 

 logMode: whether plot the data in log2 scale or not

  subset: subset of rows used to plot. It can be an index vector, or
          the length of a random subset

    seed: the random seed for random subset

     ...: optional arguments to 'boxplot'.

_D_e_t_a_i_l_s:

     The boxplot function has a "subset" parameter. By default, it is
     set as 5000, i.e., randomly selected 5000 probes to plot the
     boxplot. The purpose of this is to plot the picture faster, but it
     will also make the boxplot has slightly different each time. If
     the user wants to make sure the boxplot is the same each time, you
     can set the "subset" parameter as NULL.

_S_e_e _A_l_s_o:

     'LumiBatch-class', 'boxplot'

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

     ## load example data
     data(example.lumi)

     boxplot(example.lumi)

