translateNodeID           package:Rintact           R Documentation

_A _f_u_n_c_t_i_o_n _t_h_a_t _t_r_a_n_s_l_a_t_e_s _t_h_e _I_n_t_A_c_t _a_c_c_e_s_s_i_o_n _I_D_s _i_n _a_n _i_n_t_a_c_t_G_r_a_p_h 
_t_o _o_t_h_e_r _c_o_m_m_o_n _i_d_e_n_t_i_f_i_e_r_s.

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

     The 'translateNodeID' takes 2 parameters, an intactGraph and the
     new ID to which the IntAct accession IDs should be translated. 
     Then for the particular graph object,  translateNodeID will map
     those IntAct accession codes to the other identifiers if possible
     and re-map the node names.

_U_s_a_g_e:

     translateNodeID(g,...)

_A_r_g_u_m_e_n_t_s:

       g: An intactGraph S-4 Class.

     ...: The primary use of this generic are as methods for the in
          intactGraph S-4 class and the intactHyperGraph S-4 class. In
          both an extra parameter,  newID, is needed to detail to what
          the IntAct accession ID should be mapped. These identifiers
          are limited to the following: "uniprotId", "geneName",
          "fullName",  "locusName", and "orfName"

_V_a_l_u_e:

     An 'intactGraph' S4-class with the nodes re-mapped to the user
     supplied identifiers.

_A_u_t_h_o_r(_s):

     T Chiang

_R_e_f_e_r_e_n_c_e_s:

     Rintact: enabling computational analysis of molecular interaction
     data from the IntAct repository - Tony Chiang; Nianhua Li; Sandra
     Orchard; Samuel  Kerrien; Henning Hermjakob; Robert Gentleman;
     Wolfgang Huber Bioinformatics 2007; doi:
     10.1093/bioinformatics/btm518.

_S_e_e _A_l_s_o:

     'intactGraph-class', 'intactHyperGraph-class'

_E_x_a_m_p_l_e_s:

     # parse complex data

