PairComp-class          package:simpleaffy          R Documentation

_C_l_a_s_s "_P_a_i_r_C_o_m_p" _R_e_p_r_e_s_e_n_t_s _t_h_e _r_e_s_u_l_t_s _o_f _p_a_i_r_w_i_s_e _c_o_m_p_a_r_i_s_o_n _b_e_t_w_e_e_n _t_w_o _e_x_p_e_r_i_m_e_n_t_a_l _f_a_c_t_o_r_s

_D_e_s_c_r_i_p_t_i_o_n:

     Holds fold-change, ttest p-score and detection p-value calls(if
     used) between a pair of experimental factors.

_S_l_o_t_s:

     '_m_e_a_n_s': Object of class '"matrix"' Mean values for each of the
          experimental factors. 

     '_f_c': Object of class '"numeric"' Fold change between the means 

     '_t_t': Object of class '"numeric"' P-score between the factors 

     '_c_a_l_l_s': Object of class '"matrix"' Detection p-values for each
          probeset on each array 

     '_g_r_o_u_p': Object of class '"character"' The name of the factor that
          was compared 

     '_m_e_m_b_e_r_s': Object of class '"character"' A list containing the two
          levels compared between 

     '_p_D_a_t_a': Object of class '"pData"' The phenoData for the members
          that were compared 

     '_c_a_l_c_u_l_a_t_e_d._f_r_o_m': Object of class '"exprSet"' The original
          expression set that was being compared 

_M_e_t_h_o_d_s:

     [ 'signature(x = "PairComp")': get the values for the specified
          gene(s) 

     [<- 'signature(x = "PairComp")': not supported. 

     _c_a_l_l_s 'signature(object = "PairComp")': the detection.p.values 

     _f_c 'signature(object = "PairComp")': the fold-changes 

     _g_r_o_u_p 'signature(object = "PairComp")': the name of the group that
          was compared 

     _m_e_a_n_s 'signature(object = "PairComp")': the means of the two
          experimental factors that were compared

     _m_e_m_b_e_r_s 'signature(object = "PairComp")': the members of that
          group that were compared 

     _p_a_i_r_w_i_s_e._f_i_l_t_e_r 'signature(object = "PairComp")': Take a
          'PairComp' object and filter it to yield probesets that pass
          the specified criteria 

     _t_t 'signature(object = "PairComp")': the results of a ttest
          between groups 

     _p_D_a_t_a 'signature(object = "pData")': The phenoData from the
          members that were compared

     _c_a_l_c_u_l_a_t_e_d._f_r_o_m 'signature(object = "exprSet")': The original
          expression set 

_A_u_t_h_o_r(_s):

     Crispin Miller

_S_e_e _A_l_s_o: