GOmnplot              package:annotate              R Documentation

_A _f_u_n_c_t_i_o_n _t_o _p_l_o_t _b_y _g_r_o_u_p _m_e_a_n_s _a_g_a_i_n_s_t _e_a_c_h _o_t_h_e_r.

_D_e_s_c_r_i_p_t_i_o_n:

     For a two sample comparison, as determined by 'group', and a
     specified KEGG pathway or GO category, per group means are
     computed and plotted against each other.

_U_s_a_g_e:

     GOmnplot(x, eset, data = "hgu133plus2", group, ...)
     KEGGmnplot(x, eset, data = "hgu133plus2", group, ...)

_A_r_g_u_m_e_n_t_s:

       x: The name of the KEGG pathway or GO category. 

    eset: An 'exprSet' containing the data. 

    data: The name of the chip that was used to provide the data. 

   group: The variable indicating group membership, should have two
          different values.

     ...: Extra parameters to pass to the call to 'plot'. 

_D_e_t_a_i_l_s:

     All probes in 'eset' that map to the given category are
     determined. Then per group, per probe means are computed and
     plotted against each other. Extra parameters can be passed to the
     plot function via the 'dots' argument.

_V_a_l_u_e:

     The matrix of per group means, for each probe.

_A_u_t_h_o_r(_s):

     R. Gentleman

_S_e_e _A_l_s_o:

     'KEGG2heatmap'

_E_x_a_m_p_l_e_s:

       if(require("hgu95av2") ) {
           data(sample.exprSet.1)
           KEGGmnplot("04810", sample.exprSet.1, sample.exprSet.1$cov1, data="hgu95av2")
       }

