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)

