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)

