mmindex             package:oligoClasses             R Documentation

_A_c_c_e_s_s_o_r_s _f_o_r _P_M, _M_M _o_r _b_a_c_k_g_r_o_u_n_d _p_r_o_b_e_s _i_n_d_i_c_e_s.

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

     Extracts the indexes for PM, MM or background probes.

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

     mmindex(object, ...)
     pmindex(object, ...)
     bgindex(object, ...)

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

  object: 'FeatureSet' or 'DBPDInfo' object

     ...: Extra arguments, not yet implemented

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

     The indices are ordered by 'fid', i.e. they follow the order that
     the probes appear in the CEL/XYS files.

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

     A vector of integers representing the rows of the intensity matrix
     that correspond to PM, MM or background probes.

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

     ## How pm() works
     ## Not run: 
     x <- read.celfiles(list.celfiles())
     pms0 <- pm(x)
     pmi <- pmindex(x)
     pms1 <- exprs(x)[pmi,]
     identical(pms0, pms1)
     ## End(Not run)

