maTwoSamples             package:marray             R Documentation

_C_h_a_n_g_i_n_g _s_i_g_n_s _f_o_r _t_w_o _s_a_m_p_l_e _a_n_a_l_y_s_i_s

_D_e_s_c_r_i_p_t_i_o_n:

     Taking target file information and flip the dye swaps experiments.

_U_s_a_g_e:

     maTwoSamples(targetfile, normdata, Trt, Ctl, targetID = "TargetName", slidesID = "Slides", dyesID = "Dyes", RedID = 5, path = ".", output = TRUE)

_A_r_g_u_m_e_n_t_s:

targetfile: A data.frame containing target samples information.

normdata: A R object of class 'marrayNorm'

     Trt: A character string representing "treatment" sample.

     Ctl: A character string representing "controls" sample.

targetID: A character string representing the column name in
          'targetfile' containing target samples information.

slidesID: A character string representing the column name in
          'targetfile' containing the slide label.

  dyesID: A character string representing the column name in
          'targetfile' containing dye labeled information.

   RedID: The character use to represent the Cy5 dye.

    path: A character string representing the data directory. By
          default this is set to the current working directory ("."). 

  output: Save and tab delimited file

_V_a_l_u_e:

     An objects of 'marrayNorm' with the dye assignment adjusted.

_A_u_t_h_o_r(_s):

     Yee Hwa (Jean) Yang