importMAGEML             package:RMAGEML             R Documentation

_i_m_p_o_r_t _M_A_G_E_M_L _d_o_c_u_m_e_n_t_s

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

     This function imports MAGEML documents and creates a marrayRaw
     object.

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

     importMAGEML(directory = ".", package = "marray", DED = "none", QTD = "none", name.Rf="none", name.Rb="none", name.Gf="none" ,name.Gb =
     "none")

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

directory: Directory which contains the MAGEML files that need to be
          imported

 package: name of package to which the MAGEML should be imported

     DED: the DesignElement Dimension

     QTD: the Quantitation Type Dimension

 name.Rf: the name of the red foreground intensity

 name.Rb: the name of the red background intensity

 name.Gf: the name of the green foreground intensity

 name.Gb: the name of the green background intensity

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

     Steffen Durinck, <URL: http://www.esat.kuleuven.ac.be/~sdurinck>
       Joke Allemeersch, <URL:
     http://www.esat.kuleuven.ac.be/~jallemee>.

_R_e_f_e_r_e_n_c_e_s:

     Spellman PT, Miller M, Stewart J, Troup C, Sarkans U, Chervitz S,
     Bernhart D, Sherlock G, Ball C, Lepage M, Swiatek M, Marks WL,
     Goncalves J, Markel S, Iordan D, Shojatalab M, Pizarro A, White J,
     Hubley R, Deutsch E, Senger M, Aronow BJ, Robinson A, Bassett D,
     Stoeckert CJ Jr and Brazma A. Design and implementation of
     microarray gene expression markup language (MAGE-ML). Genome Biol.
     2002 Aug 23;3(9):RESEARCH0046.

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

     'getGnames','getArrayLayout', 'makeMarrayRaw'

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

     data<-system.file("MAGEMLdata", package="RMAGEML")
     #will return marrayRaw object.#
     importMAGEML(directory = data, package = "marray", DED = "DED:707", QTD = "QTD:707", name.Rf = "QT:F635 Mean", name.Rb = "QT:B635 Median", name.Gf = "QT:F532 Mean" ,name.Gb = "QT:B532 Median")

