opsin                  package:ape                  R Documentation

_G_e_n_e _T_r_e_e _o_f _3_2 _o_p_s_i_n _S_e_q_u_e_n_c_e_s

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

     This data set describes a gene tree estimated from 32 opsin
     sequences.

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

     data(opsin.newick)

_F_o_r_m_a_t:

     'opsin.newick' is a string with the tree in Newick format.

_S_o_u_r_c_e:

     This tree is described in Misawa and Tajima (2000) as an example
     for application of the Klastorin (1982) classification method.

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

     Misawa, K. (2000) A simple method for classifying genes and a
     bootstrap test for classifications. _Molecular Biology and
     Evolution_, *17*, 1879-1884.

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

     'klastorin'.

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

     library(ape)

     # example tree in NH format (a string)
     data("opsin.newick") 
     opsin.newick

     # get corresponding phylo object
     tree.opsin <- read.tree(text = opsin.newick)

     # plot tree
     plot(tree.opsin, label.offset = 0.01)

