readImageneHeaders           package:limma           R Documentation

_R_e_a_d _I_m_a_g_e_n_e _H_e_a_d_e_r _I_n_f_o_r_m_a_t_i_o_n

_D_e_s_c_r_i_p_t_i_o_n:

     Read the header information from an Imagene image analysis output
     file. This function is used internally by 'read.maimages' and is
     not usually called directly by users.

_U_s_a_g_e:

     readImageneHeaders(file)

_A_r_g_u_m_e_n_t_s:

    file: character string giving file name, including path if not in
          current working directory

_D_e_t_a_i_l_s:

     Output files produced by the image analysis software Imagene
     include a number of lines of header which contain information
     about the printing process. This function extracts that
     information and locates the line where the intensity data begins.

_V_a_l_u_e:

     A list with components 

Begin.Raw.Data: line number immediately before intensity data begins

 Version: version number of Imagene software

    Date: character string giving time and data that array was scanned

Image.File: character string giving original file name to which data
          was written by Imagene

Inverted: logical

Field.Dimension: list with components 'Field' containing a character
          string, 'Metarows' containing number of grid rows, 'Metacols'
          containing number of grid columns, 'Rows' containing number
          of spot rows in each grid, 'Cols' containing number of spot
          columns in each grid

Measurement.Parameters: list with numerical components 'Signal.Low',
          'Signal.High', 'Background.Low', 'Background.High',
          'Background.Buffer' and 'Background.Width'

_A_u_t_h_o_r(_s):

     Gordon Smyth

_R_e_f_e_r_e_n_c_e_s:

     <URL: http://www.biodiscovery.com/imagene.asp>

_S_e_e _A_l_s_o:

     'read.imagene'

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

_E_x_a_m_p_l_e_s:

     ## Not run: 
     This function is not intended to be called by users.
     There is an example of use in the code for function read.imagene.
     ## End(Not run)
     print(read.imagene)

