magePackageDetector          package:MAGEML          R Documentation

_F_i_n_d _M_A_G_E-_M_L _p_a_c_k_a_g_e_s _i_n _x_m_l _f_i_l_e_s

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

     To reduce the size of xml documents it is possible that one splits
     one MAGE-ML documents into smaller documents, each containing some
     of the packages. To be able to construct BioConductor objects with
     the MAGEML library, one needs to specifiy in which files the
     needed packages reside. This function is handy to find out which
     MAGE-ML packages are in which xml files.

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

     magePackageDetector(fnames = "", datadir = ".")

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

  fnames: List of filenames that belong to the same experiment

 datadir: The directory where XML file resides.

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

     Prints out the filename and MAGE-ML packages present in that file

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

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

_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:

     readMageRaw, readMageDesign

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

     data <- system.file("data", package="MAGEML")
     magePackageDetector(fnames=list("A-MEXP-5.xml", "E-MEXP-5.xml"),datadir=data)

