readSpot            package:arrayQuality            R Documentation

_E_x_t_r_a_c_t_i_o_n _o_f _m_e_a_s_u_r_e_s _f_r_o_m _S_p_o_t (._s_p_o_t) _f_i_l_e_s.

_D_e_s_c_r_i_p_t_i_o_n:

     This component reads a Spot file (.spot) and returns columns used
     for quality control.

_U_s_a_g_e:

     readSpot(fnames = NULL, path= ".", galfile=NULL,DEBUG=FALSE, skip = 0, sep ="\t",quote="\"",controlId="ID", ...)

_A_r_g_u_m_e_n_t_s:

  fnames: A "character" string naming the input file.

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

 galfile: A "character" string naming the galfile associated with the
          input file. If galfile = NULL, readSpot will use the first
          .gal file found in the working directory.

   DEBUG: If 'TRUE', debug statements are printed.

    skip: Number of lines to skip in the gpr files.

     sep: A "character" string defining the type of separation for the
          columns in the gpr files.

   quote: A "character" string defining the type of quote in the gpr
          files.

controlId: Character string. Name of the column of the Spot file used
          to define controls.

     ...: additional arguments.

_V_a_l_u_e:

     A list of vectors containing information extracted from the
     Agilent file

_A_u_t_h_o_r(_s):

     Agnes Paquet

_S_e_e _A_l_s_o:

     'slideQuality', 'agQuality', 'globalQuality'

