psimi25Graph-class          package:RpsiXML          R Documentation

_C_l_a_s_s "_p_s_i_m_i_2_5_G_r_a_p_h" ~~~

_D_e_s_c_r_i_p_t_i_o_n:

     A graph object representing data extracted from PSI-MI 2.5 files

_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 'psimi25XML2Graph'

_S_l_o_t_s:


     '_i_n_t_e_r_a_c_t_o_r_s': Object of class '"matrix"', interactor information
          in a matrix, Each row represents one interactor. Source IDs
          are used as row names. Each column represents one annotation.
           Annotations include: UniProt ID, short label, organism name,
          and NCBI taxonomy ID. Only those interactors which are  the
          nodes of the psimi25Graph is given. 

_E_x_t_e_n_d_s:

     Class 'graphNEL', directly. Class 'graphNEL', by class "graphNEL",
     distance 2.

_M_e_t_h_o_d_s:


     _s_h_o_w 'signature(object = "psimi25Graph")': show method 

     _t_r_a_n_s_l_a_t_e_S_o_u_r_c_e_I_D 'signature(r = "psimi25Graph")': translate the
          source ID into other IDs 

     _a_b_s_t_r_a_c_t 'signature(object="psimi25Graph")': get the abstract
          information for the dataset from NCBI

_A_u_t_h_o_r(_s):

     Tony Chiang <tchiang@ebi.ac.uk> , Jitao David Zhang
     <j.zhang@dkfz.de>

_S_e_e _A_l_s_o:

     'psimi25XML2Graph','S4classpsimi25Hypergraph-class'

_E_x_a_m_p_l_e_s:

     showClass("psimi25Graph")

