make.moments2

a data frame, see <a rd-options="" href="/link/gtx.params?package=gtx&version=0.0.8" data-mini-rdoc="gtx::gtx.params">gtx.params</a>.

params

a list of phenotypic response variables and
    covariates to be included in addition to genetic variables from <code>params</code>.

phenolist

a list with snpinfo and data, see <a rd-options="" href="/link/snpdata?package=gtx&version=0.0.8" data-mini-rdoc="gtx::snpdata">snpdata</a>.

snpdata

name of a variable in <code>snpdata$data</code> containing
    individual weights when approximating the likelihood for GLMs.

weightvar


  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.    


Assorted tools for genetic association analyses.  The
current focus is on implementing (either exactly or
approximately) regression analyses using summary statistics
instead of using subject-specific data.  So far, functions
exist to support multi-SNP risk score analyses, multi-SNP
conditional regression analyses, and multi-phenotype analyses,
using summary statistics.  There are helper functions for
reading and manipulating subject-specific genotype data, which
provide a platform for calculating the summary statistics, or
for using R to conduct other analyses not supported by specific
GWAS analysis tools.

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

Description

Usage

Arguments

Value

Details

Examples