readHeader               package:limma               R Documentation

_R_e_a_d _H_e_a_d_e_r _I_n_f_o_r_m_a_t_i_o_n _f_r_o_m _I_m_a_g_e _A_n_a_l_y_s_i_s _R_a_w _D_a_t_a _F_i_l_e

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

     Read the header information from a GenePix Results (GPR) file or
     from an SMD raw data file. These functions are used internally by
     'read.maimages' and are not usually called directly by users.

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

     readBlueFuseHeader(file)
     readGPRHeader(file)
     readSMDHeader(file)

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

    file: character string giving file name. If it does not contain an
          absolute path, the file name is relative to the current
          working directory.

_D_e_t_a_i_l_s:

     Raw data files exported by image analysis programs include a
     number of header lines which contain information about the
     scanning process. This function extracts that information and
     locates the line where the intensity data begins.
     'readBlueFuseHeader' is for BlueFuse output, 'readGPRHeader' is
     for GenePix output, 'readSMDHeader' is for files from the Stanford
     Microarray Database (SMD).

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

     A list with components corresponds to lines of header information.
     A key component is 'NHeaderRecords' which gives the number of
     lines in the file before the intensity data begins. All other
     components are character vectors.

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

     Gordon Smyth. Gregory Lefebvre wrote the original version of
     readBlueFuseHeader.

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

     See <URL: http://www.axon.com/gn_GenePix_File_Formats.html> for
     GenePix formats.

     See <URL: http://www.bluegnome.co.uk> for information on BlueFuse.

     See <URL: http://genome-www.stanford.edu/Microarray> for the SMD.

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

     'read.maimages'

     An overview of LIMMA functions to read data is given in
     03.ReadingData.

