CausalScreen: CausalScreen
In SharonLutz/CausalScreen: Runs the CausalScreen Function

Description Usage Arguments Value Author(s) References

CausalScreen implements a screening step to increase power when testing for direct genetic effects of multiple SNPs in family based association studies using causal inference methodology.

1	CausalScreen(X, P1, P2, l, k, y, z = NULL)

`X`	is a matrix of the child's genotype.
`P1`	is a matrix of parent 1's genotype (ie; the father).
`P2`	is a matrix of parent 2's genotype (ie; the mother).
`l`	is an intermediate phenotype such as height.
`k`	is the intermediate phenotype of interest such as weight.
`y`	is the normally distributed outcome of interest such as FEV.
`z`	is a matrix of covariates to adjust for, such as age and gender.

`snpOrder`	The order the SNP appears in the matrix
`ScreeningStepOrder`	The order of the SNP for the screening step.
`ScreenStat`	The statistic from the screeningstat that is not based on the child's genotype.
`Statistic and p-value`	Tests the direct genetic effect of the genotype of the SNP x on the outcome of interest y, given the intermediate phenotypes l and k.

Sharon Lutz, Annie Thwing

Lutz SM, Vansteelandt S, Lange C. (2013) Testing for Direct Genetic Effects Using a Screening Step in Family-Based Association Studies. Frontiers in Genetics. 4 (243).

Vansteelandt S, Goetgeluk S, Lutz S, Waldamn I, Lyon H, Schadt EE, Weiss ST, Lange C. (2009) On the Adjustment for Covariates in Genetic Association Analysis: A Novel, Simple Principle to Infer Direct Effects. Genetic Epidemiology. 33(5): 394-405.

SharonLutz/CausalScreen documentation built on May 6, 2019, 7:26 a.m.