stamNet-class              package:stam              R Documentation

_C_l_a_s_s_i_f_i_e_r _N_e_t _f_o_r _S_t_A_M

_D_e_s_c_r_i_p_t_i_o_n:

     Objects of this class describe a network of classifiers as it is
     used by structured  analysis of microarray data.

_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("stamNet", chip,
     root, probes)', or by a call to 'stam.net'.

     '_c_h_i_p' the name of the chip for which the classifier net is
          generated.

     '_r_o_o_t' the GO identifier of the node where the generation of the 
          classifier net is started.

     '_p_r_o_b_e_s' a character vector holding the identifiers of the
          probesets in  the order as they occur in the expression
          matrix

_S_l_o_t_s:


     '_c_h_i_p': Object of class '"character"', the name of the chip for 
          which the classifier net is generated.

     '_r_o_o_t': Object of class '"character"', the GO identifier of the 
          node where the generation of the       classifier net is
          started.

     '_c_h_i_p_p_k_g': Object of class '"character"', information on the 
          version of the meta data package for the chip

     '_G_O_p_k_g': Object of class '"character"', information on the version
           of the meata data package on the Gene Ontology

     '_n_o_d_e_s': Object of class '"list"', elements are of class 
          'stamINode' or 'stamLeaf', one for each node in the
          classifier net.

     '_l_e_a_f_s': Object of class '"numeric"', indices of all leaf nodes in
           slot 'nodes'

     '_i_n_o_d_e_s': Object of class '"numeric"', indices of all inner nodes
          in slot 'nodes'

     '_p_r_o_b_e_s': Object of class '"environment"', the corresponding index
           for each probeset in the expression matrices to be analyzed

_M_e_t_h_o_d_s:


     _p_r_i_n_t 'signature(x = "stamNet")': print information on the
          classifier net

     _w_r_i_t_e_H_T_M_L 'signature(x = "stamNet")': generate HTML information on
          the  classifier net. However, using 'stam.writeHTML' is
          recommended.

_A_u_t_h_o_r(_s):

     Claudio Lottaz

_S_e_e _A_l_s_o:

     'stam.net', 'stamLeaf-class',  'stamINode-class'

