addXYfromGAL       package:arrayQualityMetrics       R Documentation

_C_o_m_p_u_t_i_n_g _t_h_e _c_o_o_r_d_i_n_a_t_e_s _o_f _t_h_e _s_p_o_t_s _o_n _a _s_l_i_d_e

_D_e_s_c_r_i_p_t_i_o_n:

     From the coordinates of the blocks of a microarray slide and the
     Row and Column locations of the spots within the blocks,
     'addXYfromGAL' computes the X and Y coordinates of the spots of a
     slide.

_U_s_a_g_e:

     addXYfromGAL(x, gal.file, nBlocks, skip, ...)

_A_r_g_u_m_e_n_t_s:

       x: is an 'AnnotatedDataFrame' representing the featureData of an
          object. 

gal.file: name of the file .gal that contains the coordinates of the
          blocks. 

 nBlocks: number of blocks on the slide. 

    skip: number of header lines to skip when reading the gal.file. 

     ...: Arguments that get passed on to 'read.table'.

_V_a_l_u_e:

     The object 'x' of class 'AnnotatedDataFrame' will be returned with
     two added columns: X and Y corresponding to the absolute position
     of the probes on the array.

_A_u_t_h_o_r(_s):

     Audrey Kauffmann, Wolfgang Huber. Maintainer: <audrey@ebi.ac.uk>

