make.moments2: Build matrix of second moments from subject-specific data.

In tobyjohnson/gtx: Genetics ToolboX

Description

Performs input checking, flipping of coded and noncoded alleles, removal of individuals with missing data, constructs a subject-specific data matrix X, and returns X'X.

Usage

make.moments2(params, phenolist, snpdata, weightvar)

Arguments

params	a data frame, see gtx.params.
phenolist	a list of phenotypic response variables and covariates to be included in addition to genetic variables from params.
snpdata	a list with snpinfo and data, see snpdata.
weightvar	name of a variable in snpdata$data containing individual weights when approximating the likelihood for GLMs.

Details

After extracting the necessary columns, any rows (individuals) with any missing data are removed.

Value

A numeric matrix of second moments.

Author(s)

Toby Johnson [e-mail]

Examples

data(mthfrex)
xtx <- make.moments2(mthfr.params, c("SBP", "DBP", "SexC", "Age"), mthfrex)

tobyjohnson/gtx documentation built on Aug. 30, 2019, 8:07 p.m.