GSE-class            package:BioMVCClass            R Documentation

_C_l_a_s_s "_G_S_E": _A _c_l_a_s_s _t_o _r_e_p_r_e_s_e_n_t _g_e_n_e _s_e_t _e_n_r_i_c_h_m_e_n_t _d_a_t_a

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

     GSE is a class to represent gene set enrichment data and will be
     used in the modelData slot in the gseModel object.  This class
     will store all of the information that pertains to performing gene
     set enrichment.

_O_b_j_e_c_t_s _f_r_o_m _t_h_e _C_l_a_s_s:

     Objects can be created by calls of the form 'new("GSE", ...)'.

_S_l_o_t_s:

     '_i_n_c_i_d_M_a_t': the incidence matrix that shows the relationship
          between the genes and the gene sets 

     '_g_T_e_s_t_S_t_a_t': the test statistic for the genes relationship with
          the phenotype 

     '_g_s_T_e_s_t_S_t_a_t': the test statistic for the gene set 

     '_e_x_p_D_a_t_a': the experimental data (here it will be of class
          exprSet) 

     '_d_e_s_c_r': a description of the gene set being studied 

_M_e_t_h_o_d_s:

     _i_n_c_i_d_M_a_t<- Sets the 'incidMat' slot 

     _i_n_c_i_d_M_a_t Returns the 'incidMat' slot 

     _g_T_e_s_t_S_t_a_t<- Sets the 'gTestStat' slot 

     _g_T_e_s_t_S_t_a_t Returns the 'gTestStat' slot 

     _g_s_T_e_s_t_S_t_a_t<- Sets the 'gsTestStat' slot 

     _g_s_T_e_s_t_S_t_a_t Returns the 'gsTestStat' slot 

     _e_x_p_D_a_t_a<- Sets the 'expData' slot 

     _e_x_p_D_a_t_a Returns the 'expData' slot 

     _d_e_s_c_r<- Sets the 'descr' slot 

     _d_e_s_c_r Returns the 'descr' slot 

_A_u_t_h_o_r(_s):

     Elizabeth Whalen

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

     'gseModel-class'

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

