setEnrichmentFactors          package:GOSim          R Documentation

_S_e_t _t_h_e _d_e_p_t_h _a_n_d _d_e_n_s_i_t_i_y _e_n_r_i_c_h_m_e_n_t _f_a_c_t_o_r_s _f_o_r _G_O _t_e_r_m
_s_i_m_i_l_a_r_i_t_y.

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

     Sets the depth and density enrichment factors for the enriched
     FuSSiMeg GO term similarity measure by Couto et al.

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

     setEnrichmentFactors(alpha = 0.5, beta = 0.5)

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

   alpha: depth factor 

    beta: density factor 

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

     none

_N_o_t_e:

     The enrichment factors are stored internally and are used by the
     function 'getTermSim', if one uses the method "CoutoEnriched" to
     calculate GO term similarities

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

     Holger Froehlich

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

     F.Couto,M. Silva, P. Coutinho, Implementation of a Functional
     Semantic Similarity Measure between Gene-Products, DI/FCUL TR
     03-29, Department of Informatics, University of Lisbon, 2003

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

     'getTermSim'

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

      setEnrichmentFactors(alpha=0.1,beta=0.5)
      getTermSim(c("GO:0006955","GO:0007584"),method="CoutoEnriched")

