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'.

