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', '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 '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.

