separateXMLDataByExpt        package:Rintact        R Documentation

_A _f_u_n_c_t_i_o_n _t_h_a_t _t_a_k_e_s _a _v_e_c_t_o_r _o_f _I_n_t_A_c_t _X_M_L _f_i_l_e _n_a_m_e _l_o_c_a_t_i_o_n_s
_a_n_d _c_o_n_v_e_r_t_s _t_h_e_m _t_o _g_r_a_p_h _o_b_j_e_c_t_s.

_D_e_s_c_r_i_p_t_i_o_n:

     The separateXMLDataByExpt function takes in a vector of XML files
     and generates a list of graph objects dividing the data by 
     separately conducted experiments. If a single XML file contains k
     experimental datasets, then k intactGraph objects will be
     produced.

_U_s_a_g_e:

     separateXMLDataByExpt(intactFiles, type="direct", directed=TRUE)

_A_r_g_u_m_e_n_t_s:

intactFiles: A vector of IntAct XML file name locations, i.e. either
          where they can be found on the local hard drive or an url to
          where they can be obtained

    type: A character. Either "direct" or "indirect" based on the  `
          the information that needs to be parsed.

directed: A logical. User defined parameter so that the return value
          with either be a directed or undirected graph object.

_V_a_l_u_e:

     A list of intactGraph objects.

_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:

     'interactionEntry-class', 'complexEntry-class',        
     'intactXML2Graph'

