maigesDEcluster-class       package:maigesPack       R Documentation

_m_a_i_g_e_s_D_E_c_l_u_s_t_e_r _c_l_a_s_s, _s_t_o_r_e _r_e_s_u_l_t_s _o_f _d_i_f_f_e_r_e_n_t_i_a_l _g_e_n_e _e_x_p_r_e_s_s_i_o_n
_a_n_a_l_y_s_i_s

_D_e_s_c_r_i_p_t_i_o_n:

     This class extends the class 'maigesDE' to store results from
     differential expression analysis. It is produced in the same way
     as the latter, but has one more slot containing the W values. This
     is useful to do cluster analysis. Together the slots of the
     'maigesDE' class, it has one more given in _Slots_ section.

_D_e_t_a_i_l_s:

     Objects of this class are produced  in the same way as 'maigesDE'.
     The addition of the slot 'W' turn possible to do cluster analysis
     in this class of objects using the functions 'hierMde', 'somMde'
     and 'kmeansMde', selecting genes according to the results of gene
     expression analysis.

_S_l_o_t_s:


     '_W': numeric matrix containing the W values for the genes and
          samples used in the analysis.

_M_e_t_h_o_d_s:


     _b_o_x_p_l_o_t 'signature(x = 'maigesDEcluster')': boxplot method for
          'maigesDEcluster' class. Display boxplots of one gene
          previously defined.

     _p_l_o_t 'signature(x = 'maigesDEcluster')': plot method for
          'maigesDEcluster' class. Display _MA_ plots.

     _p_r_i_n_t 'signature(x = 'maigesDEcluster')': print method for
          'maigesDEcluster' class.

     _s_h_o_w 'signature(x = 'maigesDEcluster')': show method for
          'maigesDEcluster' class.

     _s_u_m_m_a_r_y 'signature(x = 'maigesDEcluster')': summary method for
          'maigesDEcluster' class.

_A_u_t_h_o_r(_s):

     Gustavo H. Esteves <gesteves@vision.ime.usp.br>

_S_e_e _A_l_s_o:

     'deGenes2by2Ttest', 'deGenes2by2Wilcox', 'deGenes2by2BootT',
     'deGenesANOVA', 'hierMde', 'somMde', 'kmeansMde'.

