BAMD-package {BAMD}R Documentation

Bayesian Association Model for Genomic Data with Missing Covariates

Description

This package fits the following linear mixed model

Y = X β + Z gamma + ε

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.

Details

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, gs, 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-α)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, vs, is a variable selector that will pick out the ``best'' model, as measured by the Bayes Factor, using a stochastic search algorithm.

Author(s)

Vik Gopal viknesh@stat.ufl.edu

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

References

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

See Also

gs, vs


[Package BAMD version 1.2 Index]