aafGOItem-class           package:annaffy           R Documentation

_C_l_a_s_s _a_a_f_G_O_I_t_e_m, _a _c_l_a_s_s _f_o_r _g_e_n_e _o_n_t_o_l_o_g_y _i_d _e_l_e_m_e_n_t_s

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

     An abstraction for gene ontology id elements from Bioconductor
     data packages. Multiple instances of this class are held by the
     wrapper class 'aafGO'.

_O_b_j_e_c_t_s _f_r_o_m _t_h_e _C_l_a_s_s:

     Objects are generally created by the 'aafGO' constructor. Objects
     can also be created manually by calls of the form
     'new("aafGOItem", id, name, type)'.

_S_l_o_t_s:

     '_i_d': Object of class 'character' containing GO id

     '_n_a_m_e': Object of class 'character' containing textual name

     '_t_y_p_e': Object of class 'character' containing GO subtype

     '_e_v_i_d': Object of class 'character' containing GO evidence code

_M_e_t_h_o_d_s:

     _g_e_t_T_e_x_t (aafGOItem): Returns textual representation formatted
          "'id': 'name'".

     _g_e_t_U_R_L (aafGOItem): Returns a URL to the corresponding gene
          ontology entry on AmiGO.

     _g_e_t_H_T_M_L (aafGOItem): Returns an HTML representation including the
          URL link, gene ontology name, and rollover subtype.

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

     Colin A. Smith, annaffy@colinsmith.org

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

     aafGO-class, aafGO

