doANOVA               package:ABarray               R Documentation

_P_e_r_f_o_r_m _o_n_e _w_a_y _o_r _t_w_o _w_a_y _A_N_O_V_A

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

     If only one factor is provided in parameter, one way ANOVA is
     performed. If two factors are provided, two way ANOVA is
     performed.

_U_s_a_g_e:

     doANOVA(eset, group1, group2, snThresh = 3, detectSample = 0.5)

_A_r_g_u_m_e_n_t_s:

    eset: An 'ExpressionSet' object.

  group1: A factor name or labels to test on. If eset is an
          'ExpressionSet' object, either name or labels can be used. If
          'eset' is an expression matrix, labels should be used.

  group2: A factor name or labels to test on.

snThresh: Using probes detectable for ANOVA analysis, default S/N value
          is 3 or more to be considered detectable.

detectSample: The percentage of samples the probe is detected in order
          to be considered in ANOVA analysis.

_D_e_t_a_i_l_s:

     At least one group should be provided. If 'ExpressionSet' object
     is used, group1 or group2 is the name of the sampleGroup defined
     in experiment design file. If labels are to be used, they can be
     either numeric or text, e.g., c(1,1,2,2,3,3) or c("treat1",
     "treat1", "treat2", "treat2", "treat3", "treat3").

     If the probe is detectable in 50% (default) or more samples in any
     one of the subgroup, it is included in the ANOVA analysis.

_V_a_l_u_e:

     a vector if one way ANOVA; a matrix if two way ANOVA

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

     Y Andrew Sun

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

       #- one way ANOVA
     #-  anova <- doANOVA(eset, "sampleGroup")

       #- two way ANOVA
     #-  anova <- doANOVA(eset, "sampleGroup1", "sampleGoup2")   

