plotBlockImage       package:spotSegmentation       R Documentation

_P_l_o_t _M_i_c_r_o_a_r_r_a_y _I_m_a_g_e _B_l_o_c_k

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

     Displays a block of a microarray image.

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

     plotBlockImage(z,title,one)

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

       z: Intensities of the image pixels, in the form a of a matrix.

   title: A title for the image plot (optional).

     one: Sets appropriate graphics parameters for displaying
          individuals spots (default:FALSE).

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

     None, other than the displayed plot.

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

     Q. Li, C. Fraley, R. Bumgarner, K. Y. Yeung, and A. Raftery\
     Robust model-based segmentation of microarray images,\  Technical
     Report No.~473, Department of Statistics, University of
     Washington, January 2005.

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

     'spotseg'

_E_x_a_m_p_l_e_s:

     data(spotSegTest)

     # columns of spotSegTest:
     #  1 intensities from the Cy3 (green) channel
     #  2 intensities from the Cy5 (red) channel

     dataTransformation <- function(x) (256*256-1-x)^2*4.71542407E-05 

     chan1 <- matrix(dataTransformation(spotSegTest[,1]), 144, 199)
     chan2 <- matrix(dataTransformation(spotSegTest[,2]), 144, 199)

     plotBlockImage(chan1)
     plotBlockImage(chan2)

