divc                  package:ade4                  R Documentation

_R_a_o'_s _d_i_v_e_r_s_i_t_y _c_o_e_f_f_i_c_i_e_n_t _a_l_s_o _c_a_l_l_e_d _q_u_a_d_r_a_t_i_c _e_n_t_r_o_p_y

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

     Calculates Rao's diversity coefficient within samples.

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

     divc(df, dis, scale)

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

      df: a data frame with elements as rows, samples as columns, and
          abundance, presence-absence or frequencies as entries

     dis: an object of class 'dist' containing distances or
          dissimilarities among elements. If 'dis' is null,
          Gini-Simpson index is performed.

   scale: a logical value indicating whether or not the diversity
          coefficient should be scaled by its maximal value over all
          frequency distributions.

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

     Returns a data frame with samples as rows and the diversity
     coefficient within samples as column

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

     Sandrine Pavoine pavoine@biomserv.univ-lyon1.fr

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

     Rao, C.R. (1982) Diversity and dissimilarity coefficients: a
     unified approach. _Theoretical Population Biology_, *21*, 24-43.

     Gini, C. (1912) Variabilit e mutabilit. _Universite di Cagliari
     III_, Parte II.

     Simpson, E.H. (1949) Measurement of diversity. _Nature_, *163*,
     688.

     Champely, S. and Chessel, D. (2002) Measuring biological diversity
     using Euclidean metrics. _Environmental and Ecological
     Statistics_, *9*, 167-177.

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

     data(ecomor)
     ecomor.phylog <- taxo2phylog(ecomor$taxo)
     divc(ecomor$habitat, ecomor.phylog$Wdist)

     data(humDNAm)
     divc(humDNAm$samples, sqrt(humDNAm$distances))

