getLayout               package:limma               R Documentation

_E_x_t_r_a_c_t _t_h_e _P_r_i_n_t _L_a_y_o_u_t _o_f _a_n _A_r_r_a_y _f_r_o_m _t_h_e _G_A_L _F_i_l_e

_D_e_s_c_r_i_p_t_i_o_n:

     From the Block, Row and Column information in the GAL file,
     determine the number of grid rows and columns on the array and the
     number of spot rows and columns within each grid.

_U_s_a_g_e:

     getLayout(gal)

_A_r_g_u_m_e_n_t_s:

     gal: data.frame containing the GAL, i.e., giving the position and
          gene identifier of each spot

_D_e_t_a_i_l_s:

     A GAL file is a list of genes and associated information produced
     by an Axon microarray scanner. This function assumes that the
     data.frame contains columns 'Block', 'Column' and 'Row'. The
     number of tip columns is not determinable from the GAL but is
     assumed to be four.

_V_a_l_u_e:

     A list with components 

 ngrid.r: integer, number of grid rows on the arrays

 ngrid.c: integer, number of grid columns on the arrays

 nspot.r: integer, number of rows of spots in each grid

 nspot.c: integer, number of columns of spots in each grid

_A_u_t_h_o_r(_s):

     Gordon Smyth

_S_e_e _A_l_s_o:

     'gpTools'.

     An overview of LIMMA functions for reading data is given in
     3.ReadingData.

_E_x_a_m_p_l_e_s:

     # gal <- readGAL()
     # layout <- getLayout(gal)

