Genome-Wide Association analyses with Family data


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Documentation for package ‘GWAF’ version 1.2

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GWAF-package Genome-Wide Association analyses with Family data
auto function to generate scripts for genome-wide association analysis using GWAF
gee.lgst function for testing association between a dichotomous trait and a genotyped SNP in family data using GEE
gee.lgst.batch function to test genetic association between a dichotomous trait and a batch of genotyped SNPs in families using GEE
gee.lgst.batch.imputed function to test genetic association between a dichotomous trait and a batch of imputed SNPs in families using GEE
gee.lgst.imputed function for testing association between a dichotomous trait and an imputed SNP in family data using GEE
GWAF Genome-Wide Association analyses with Family data
GWplot function for making genome-wide p-values plot
lme.batch function to test genetic association for a continuous trait in families using Linear Mixed Effects model
lme.batch.imputed function to test associations between a continuous trait and a batch of imputed SNPs in families using Linear Mixed Effects model
lmekin function for linear mixed effects modeling with a kinship coefficient matrix
qq function to make Qantile-Qantile (QQ) plot for p-values