RVtests-package: Rare Variant Tests Using Multiple Regression Methods
Description
Use regularized multiple regression methods to test rare variants association with disease traits.
Include 5 methods: ridge regression (RR), principal components regression (PCR), partial least
squares regression (PLS), sparse PLS (SPLS), and the LASSO.
The empirical pvalue is obtained by an adaptive permutation.
The permutation parameters should be properly larger to get a reliable pvalue.
Usually let the minimum permutation, npermutation = 1000,
and the minimum nonsignificant counts, min.nonsignificant.counts = 50.
If the maximum permutation equals the minimum permutation, a full permutation is run.Details
ll{
Package: RVtests
Type: Package
Version: 1.0
Date: 2012-05-18
License: GLP 2.0 or greater
LazyLoad: yes
}References
C. Xu, M. Ladouceur, Z. Dastani, J. B. Richards, A. Ciampi, C. M.T. Greenwood (2012), Multiple regression methods show great potential for rare variant association tests, PLoSONE.