normalize.contrasts           package:affy           R Documentation

_N_o_r_m_a_l_i_z_e _i_n_t_e_n_s_i_t_i_e_s _u_s_i_n_g _t_h_e _c_o_n_t_r_a_s_t_s _m_e_t_h_o_d

_D_e_s_c_r_i_p_t_i_o_n:

     Scale chip objects in an 'AffyBatch-class'.

_U_s_a_g_e:

     normalize.AffyBatch.contrasts(abatch,span=2/3,choose.subset=TRUE,
                                   subset.size=5000,verbose=TRUE,
                                   family="symmetric",type=c("together","pmonly","mmonly","separate"))

_A_r_g_u_m_e_n_t_s:

  abatch: an 'AffyBatch-class'

    span: parameter to be passed to the function 'loess'.

choose.subset: 

subset.size: 

 verbose: verbosity flag

  family: parameter to be passed to the function 'loess'.

    type: A string specifying how the normalization should be applied.

_V_a_l_u_e:

     An object of the same class as the one passed.

_S_e_e _A_l_s_o:

     'maffy.normalize'

_E_x_a_m_p_l_e_s: