oGtypeExSet-class          package:GGtools          R Documentation

_C_l_a_s_s "_o_G_t_y_p_e_E_x_S_e_t" ~~~

_D_e_s_c_r_i_p_t_i_o_n:

     Experimental class for combining oligo SnpCallSet with
     ExpressionSet

_O_b_j_e_c_t_s _f_r_o_m _t_h_e _C_l_a_s_s:

     Objects can be created by calls of the form 'new("oGtypeExSet", 
     snpCalls=list(), dbConns=list(), x)' where 'x' is an
     'ExpressionSet' instance.

_S_l_o_t_s:

     '_s_n_p_C_a_l_l_s': Object of class '"list"' named list of 'SnpCallSet'
          instances  

     '_d_b_C_o_n_n_s': Object of class '"list"' list of SQLite connections for
          SNP annotation structures 

     '_a_s_s_a_y_D_a_t_a': Object of class '"AssayData"' from expression data 

     '_p_h_e_n_o_D_a_t_a': Object of class '"AnnotatedDataFrame"' ~~ 

     '_f_e_a_t_u_r_e_D_a_t_a': Object of class '"AnnotatedDataFrame"' ~~ 

     '_e_x_p_e_r_i_m_e_n_t_D_a_t_a': Object of class '"MIAME"' ~~ 

     '_a_n_n_o_t_a_t_i_o_n': Object of class '"character"' ~~ 

     '.___c_l_a_s_s_V_e_r_s_i_o_n__': Object of class '"Versions"' ~~ 

_E_x_t_e_n_d_s:

     Class '"ExpressionSet"', directly. Class '"eSet"', by class
     "ExpressionSet", distance 2. Class '"VersionedBiobase"', by class
     "ExpressionSet", distance 3. Class '"Versioned"', by class
     "ExpressionSet", distance 4.

_M_e_t_h_o_d_s:

     No methods defined with class "oGtypeExSet" in the signature.

_N_o_t_e:

     addAnno, getSNPindices, and tx.rsnum need further development.

_A_u_t_h_o_r(_s):

     VJ Carey <stvjc@channing.harvard.edu>

_E_x_a_m_p_l_e_s:

     # use new("oGtypeExSet", snpCalls=list(Nsp=nspCalls, Sty=styCalls),
     #    dbConns=list(), x3pSet)
     showClass("oGtypeExSet")

