as.matrix               package:limma               R Documentation

_T_u_r_n _a _M_i_c_r_o_a_r_r_a_y _D_a_t_a _O_b_j_e_c_t _i_n_t_o _a _M_a_t_r_i_x

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

     Turn a microarray data object into a numeric matrix by extracting
     the expression values.

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

     ## S3 method for class 'MAList':
     as.matrix(x,...)

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

       x: an object of class 'RGList', 'MAList', 'EList', 'MArrayLM',
          'marrayNorm', 'PLMset', 'ExpressionSet', 'LumiBatch' or
          'vsn'.

     ...: additional arguments, not used for these methods.

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

     These methods extract the matrix of log-ratios, for 'MAList' or
     'marrayNorm' objects, or the matrix of expression values for other
     expression objects such as 'EList' or 'ExressionSet'. For
     'MArrayLM' objects, the matrix of fitted coefficients is
     extracted.

     These methods involve loss of information, so the original data
     object is not recoverable.

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

     A numeric matrix.

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

     Gordon Smyth

_S_e_e _A_l_s_o:

     'as.matrix' in the base package or 'exprs' in the Biobase package.

     02.Classes gives an overview of data classes used in LIMMA.

