rvTDTs: compute weights from population controls

Description

compute the p value for TDTs

Usage

kernel_TDT(parent.geno,child.geno,snp.weight)
	lc_TDT(parent.geno,child.geno,snp.weight)
	TDT_permutation(parent.geno,child.geno,snp.weight1,snp.weight2,snp.weight3,nperm)

Arguments

parent.geno

parents genotype

child.geno

child genotype

snp.weight

weights for each SNP

nperm

number of permuations

snp.weight1

weights =1 for all SNP

snp.weight2

weighted by MAF

snp.weight3

weighted by population controls

Value

pvaluepvalues from the test

Details

ll{ Package: rvTDT Type: Package Version: 1.0 Date: 2014-04-07 License: GPL-3 }

References

Yu Jiang, Glen A. Satten, Yujun Han, Michael P. Epstein, Erin L. Heinzen, David B. Goldstein, Andrew S. Allen; Utilizing Population Controls in Rare-Variant Case-Parent Association Tests