gwSnpScreenResult-class        package:GGBase        R Documentation

_C_l_a_s_s "_g_w_S_n_p_S_c_r_e_e_n_R_e_s_u_l_t" - _c_o_n_t_a_i_n_e_r _f_o_r _G_G_t_o_o_l_s _g_w_S_n_p_S_c_r_e_e_n
_m_e_t_h_o_d _o_u_t_p_u_t_s _a_n_d _a_l_l_i_e_d _o_b_j_e_c_t_s

_D_e_s_c_r_i_p_t_i_o_n:

     Class "gwSnpScreenResult" - container for GGtools gwSnpScreen
     method outputs and allied objects

_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("gwSnpScreenResult", ...)'. These will be primarily lists of
     inference tables (snps are rows, columns are statistics and
     p-values).  Additional slots manage analysis metadata.

     gwSnpScreenResult is intended for genome-wide analysis of
     expression for a single gene.

     cwSnpScreenResult is intended for the restriction to a single
     chromosome.

     multiGwSnpScreenResult is intended for analyses with multiple
     genes.

_S_l_o_t_s:


     '._D_a_t_a': Object of class '"list"' containing inference tables
          (snps are rows, columns are statistics and p-values) 

     '_g_e_n_e': Object of class '"character"' typically the HUGO symbol of
          the gene analyzed 

     '_p_s_i_d': Object of class '"character"' the feature identifier of
          the associated microarray 

     '_a_n_n_o_t_a_t_i_o_n': Object of class '"character"' vector of relevant
          annotation package identifier names 

     '_s_n_p_L_o_c_P_a_c_k_a_g_e': Object of class '"character"' name of package
          holding the netCDF store of SNP locations 

     '_s_n_p_L_o_c_E_x_t_R_e_f': Object of class '"character"' name of object in
          snpLocPackage pointing to the external store (SQLite) 

     '_a_c_t_i_v_e_S_n_p_I_n_d_s': Object of class '"numeric"' vector telling which
          SNPs (relative to the referenced netCDF locations store) were
          used


_E_x_t_e_n_d_s:

     Class '"list"', from data part. Class '"vector"', by class "list",
     distance 2. Class '"AssayData"', by class "list", distance 2.

_M_e_t_h_o_d_s:

     No methods defined with class "gwSnpScreenResult" in the signature
     in class GGBase.  See GGtools gwSnpScreen documentation.

_A_u_t_h_o_r(_s):

     VJ Carey <stvjc@channing.harvard.edu>

_E_x_a_m_p_l_e_s:

     showClass("gwSnpScreenResult")
     showClass("cwSnpScreenResult")

