BAMD-package              package:BAMD              R Documentation

_B_a_y_e_s_i_a_n _A_s_s_o_c_i_a_t_i_o_n _M_o_d_e_l _f_o_r _G_e_n_o_m_i_c _D_a_t_a _w_i_t_h _M_i_s_s_i_n_g _C_o_v_a_r_i_a_t_e_s

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

     This package fits the following linear mixed model 

                    Y = X beta + Z gamma + epsilon

     where the covariates  for the random effects (in the Z-matrix)
     have missing values.  The Z-matrix consists of Single Nucelotide
     Polymorphism (SNP) data and the  Y-vector contains the phenotypic
     trait of interest. The X-matrix typically  describes the family
     structure of the organisms.

_D_e_t_a_i_l_s:


       Package:   BAMD
       Type:      Package
       Version:   1.2
       Date:      2009-04-20
       License:   GPL-2
       LazyLoad:  yes

     There are two functions in this package. The first,
     'gibbsSampler', will fit and  estimate the posterior parameters in
     the model above. This will allow the  experimenter to pick out
     which covariates were significantly non-zero, since  the routine
     will return (1-alpha)100% confidence intervals. The imputed 
     missing values at each iteration of the Gibbs sampler will be
     stored in a file for  use by the second function.

     The second function, 'variableSelector', is a variable selector
     that will pick out the ``best'' model, as measured by the Bayes
     Factor, using a stochastic search algorithm.

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

     Vik Gopal viknesh@stat.ufl.edu

     Maintainer: Vik Gopal <viknesh@stat.ufl.edu>

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

     Gopal, V. "BAMD User Manual" <URL:
     http://www.stat.ufl.edu/~viknesh/assoc_model/assoc.html>

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

     'gibbsSampler', 'variableSelector'

