DataSet-class            package:genArise            R Documentation

_D_a_t_a_S_e_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, z-scores 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("DataSet",sets,
     type)' where 'sets' is a list containing Cy3, Cy5, Id and Zscore
     and 'type' is "ri" or "ma". 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.
       'Id':      Ids from all the observations.
       'Zscore':  The result of (R - mean) / sd that define an intensity-dependent Z-score threshold to identify differential expression.

     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.

