metaprep-class           package:metahdep           R Documentation

_C_l_a_s_s _m_e_t_a_p_r_e_p

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

     This is a class representation for the effect size estimates and
     other summary information for a single gene, from a collection of
     gene expression studies, usually constructed in preparation for a
     meta-analysis.

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

     Objects can be created using the function 'metahdep.format' and
     'new'.

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


     '_t_h_e_t_a': Object of class 'vector' representing the gene's effect
          size estimates (differential expression measures) from the
          multiple studies. 

     '_V': Object of class 'matrix' representing the sampling
          variance/covariance matrix of the gene's effect size
          estimates from the multiple studies. 

     '_X': Object of class 'matrix' representing the covariate (or
          design) matrix for the gene. Covariate information from the
          multiple studies is represented here. 

     '_M': Object of class 'matrix' representing the block diagonal
          hierarchical structure of effect size estimates from the
          multiple studies.  

     '_m_a_x._k': Object of class 'integer' representing the size of the
          largest block on the diagonal of 'M', i.e., the size of the
          largest hierarchical dependence group for the gene. 

     '_r_o_w._i_n_d_i_c_e_s': Object of class 'matrix' with columns named Study
          and Row.  Optionally returned by the function
          'metahdep.format()', to see which gene (Row) in which
          'ES.obj' object (Study) produced the data recorded in each
          'metaprep' object. 

     '_g_e_n_e': Object of class 'character' representing the gene name. 

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


     @ replace the slot entries 

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

     ###
     ###  See the metahdep package vignette for a full example 
     ###
     data(HGU.prep.list)
     HGU.prep.list[[7]]

