psimi25Interaction-class       package:RpsiXML       R Documentation

_C_l_a_s_s "_p_s_i_m_i_2_5_I_n_t_e_r_a_c_t_i_o_n"

_D_e_s_c_r_i_p_t_i_o_n:

     A class representing interaction 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
     'parsePsimi25Interaction'

_S_l_o_t_s:


     '_s_o_u_r_c_e_D_b': Object of class '"character"', source database

     '_s_o_u_r_c_e_I_d': Object of class '"character"', source database ID

     '_i_n_t_e_r_a_c_t_i_o_n_T_y_p_e': Object of class '"character"', character, the
          method used for detecting the interaction ,such as "pull
          down"

     '_e_x_p_P_u_b_M_e_d': Object of class '"character"', PubMed ID of the
          publication that describes the experiment

     '_e_x_p_S_o_u_r_c_e_I_d': Object of class '"character"', source database ID
          of the experiment

     '_c_o_n_f_i_d_e_n_c_e_V_a_l_u_e': Object of class '"character"', confidence value
          of the experimental interaction

     '_p_a_r_t_i_c_i_p_a_n_t': Object of class '"character"', UniProt IDs of the
          participants. Important when no bait/prey information is
          available

     '_b_a_i_t': Object of class '"character"', UniProt ID of the bait 

     '_p_r_e_y': Object of class '"character"', UniProt ID(s) of the
          prey(s)

     '_i_n_h_i_b_i_t_o_r': Object of class '"character"', UniProt ID of the
          inhibitor, NA when missing

     '_n_e_u_t_r_a_l_C_o_m_p_o_n_e_n_t': Object of class '"character"', UniProt ID of
          the neutral components, NA when missing

_M_e_t_h_o_d_s:


     _i_n_t_e_r_a_c_t_i_o_n_T_y_p_e 'signature(x = "psimi25Interaction")': finds out
          interaction type 

     _s_h_o_w 'signature(object = "psimi25Interaction")': a print method

     _s_o_u_r_c_e_D_b 'signature(x = "psimi25Interaction")': finds out source
          database

     _s_o_u_r_c_e_I_d 'signature(x = "psimi25Interaction")': returns ID of the
          source database 

     _b_a_i_t 'signature(x = "psimi25Interaction")': returns the UniProt ID
          of the bait

     _p_r_e_y 'signature(x = "psimi25Interaction")': returns the UniProt
          ID(s) of the prey(s)

_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:

     'parsePsimi25Interaction','S4CLASSpsimi25Interactor-class',
     'S4CLASSpsimi25Experiment-class',
     'S4classpsimi25InteractionEntry-class'

_E_x_a_m_p_l_e_s:

     showClass("psimi25Interaction")

