MAplot                 package:affy                 R Documentation

_R_e_l_a_t_i_v_e _M _v_s. _A _p_l_o_t_s

_D_e_s_c_r_i_p_t_i_o_n:

     Create boxplots of M or M vs A plots. Where M is determined
     relative to a specified chip or to a pseudo-median reference chip.

_U_s_a_g_e:

     MAplot(object,...)
     Mbox(object,...)
     ma.plot(A,M,subset=sample(1:length(M),min(c(10000, length(M)))),show.statistics=TRUE,span=2/3,family.loess="gaussian",cex=2,...)

_A_r_g_u_m_e_n_t_s:

  object: An 'AffyBatch-class'

     ...: Additional parameters for the routine

       A: A vector to plot along the horizonal axis

       M: A vector to plot along vertical axis

  subset: A set of indices to use when drawing the loess curve

show.statistics: If true some summary statistics of the M values are
          drawn

    span: span to be used for loess fit.

family.loess: '"guassian"' or '"symmetric"' as in 'loess'.

     cex: Size of text when writing summary statistics on plot

_S_e_e _A_l_s_o:

     'mva.pairs'

_E_x_a_m_p_l_e_s:

        data(affybatch.example)
        MAplot(affybatch.example)
        Mbox(affybatch.example)

