preProcessGeneST         package:ArrayTools         R Documentation

_P_r_o_p_r_o_c_e_s_s _g_e_n_e_c_h_i_p _S_T _a_r_r_a_y

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

     Proprocess genechip ST array by taking the log2 of the expression
     value.

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

     preProcessGeneST(object, offset = 1, rmControl = TRUE, output = FALSE, mydir = getwd())

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

  object: an 'ExpressionSet'.

  offset: The 'offset' is added to the expression value to avoid
          log2(0) = -Inf.

rmControl: Setting 'rmControl = TRUE' to remove control probes.

  output: If 'output = TRUE', it will output the preprocessed data in
          the specified direcotry  from the 'mydir' argument.

   mydir: specifed directory to contain the output

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

     an 'ExpressionSet'

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

     Xiwei Wu, Arthur Li

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

        data(eSetExample)
        processedData <- preProcessGeneST(eSetExample)  

