Spot-class             package:genArise             R Documentation

_S_p_o_t - _c_l_a_s_s

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

     A simple list-based class for storing red and green channel
     foreground and background intensities for a batch of spotted
     microarrays and the Ids.

_C_r_e_a_t_i_n_g _O_b_j_e_c_t_s _f_r_o_m _t_h_e _C_l_a_s_s:

     Objects can be created by calls of the form 'new("Spot",spot)'
     where 'spot' is a list. Objects are normally created by
     'read.spot'.

_S_l_o_t_s/_L_i_s_t _C_o_m_p_o_n_e_n_t_s:

     This class contains no slots (other than '.Data'), but objects
     should contain the following list components:

       'Cy5':    numeric matrix containing the red (cy5) foreground intensities. Rows correspond to spots and columns to arrays.
       'Cy3':    numeric matrix containing the green (cy3) foreground intensities.
       'BgCy5':  numeric matrix containing the red (cy5) background intensities.
       'BgCy3':  numeric matrix containing the green background intensities.
       'Id':     Ids from all the observations.

     All of these matrices should have the same dimensions.

_M_e_t_h_o_d_s:

     This class inherits directly from class 'list' so any operation
     appropriate for lists will work on objects of this class.

