GWAF-package |
Genome-wide association/interaction analysis and rare variant analysis with family data |
auto |
function to generate scripts for genome-wide association/interaction analysis |
geepack.lgst |
function for testing association between a dichotomous trait and a genotyped SNP in family data using Generalized Estimation Equation model |
geepack.lgst.batch |
function to test genetic associations between a dichotomous trait and a batch of genotyped SNPs in families using Generalized Estimation Equation model |
geepack.lgst.batch.imputed |
function to test genetic associations between a dichotomous trait and a batch of imputed SNPs in families using Generalized Estimation Equation model |
geepack.lgst.imputed |
function for testing association between a dichotomous trait and an imputed SNP in family data using Generalized Estimation Equation model |
geepack.lgst.int |
function for testing gene-environment or gene-gene interaction between a dichotomous trait and a genotyped SNP in family data using Generalized Estimation Equation model |
geepack.lgst.int.batch |
function to test gene-environment or gene-gene interactions between a dichotomous trait and a batch of genotyped SNPs in families using Generalized Estimation Equation model |
geepack.lgst.int.batch.imputed |
function to test gene-environment or gene-gene interactions between a dichotomous trait and a batch of imputed SNPs in families using Generalized Estimation Equation model |
geepack.lgst.int.imputed |
function for testing gene-environment or gene-gene interaction between a dichotomous trait and an imputed SNP in family data using Generalized Estimation Equation model |
geepack.quant.batch |
function to test genetic associations between a continuous trait and a batch of genotyped SNPs in families using Generalized Estimation Equation model |
geepack.quant.batch.imputed |
function to test associations between a continuous trait and a batch of imputed SNPs in families using Generalized Estimation Equation model |
geepack.quant.int.batch |
function to test gene-environment or gene-gene interactions for a continuous trait and a batch of genotyped SNPs in families using Generalized Estimation Equation model |
geepack.quant.int.batch.imputed |
function to test gene-environment or gene-gene interactions between a continuous trait and a batch of imputed SNPs in families using Generalized Estimation Equation model |
glmm.lgst |
function for testing association between a dichotomous trait and a genotyped SNP in family data using Generalized Linear Mixed Effects model |
glmm.lgst.batch |
function to test genetic association between a dichotomous trait and a batch of genotyped SNPs in families using Generalized Linear Mixed Effects model |
GWAF |
Genome-wide association/interaction analysis and rare variant analysis with family data |
GWplot |
function for making genome-wide p-value plot |
lmepack.batch |
function to test genetic associations between a continuous trait and a batch of genotyped SNPs in families using Linear Mixed Effects model |
lmepack.batch.imputed |
function to test associations between a continuous trait and a batch of imputed SNPs in families using Linear Mixed Effects model |
lmepack.int.batch |
function to test gene-environment or gene-gene interactions for a continuous trait and a batch of genotyped SNPs in families using Linear Mixed Effects model |
lmepack.int.batch.imputed |
function to test gene-environment or gene-gen interaction and associations between a continuous trait and a batch of imputed SNPs in families using Linear Mixed Effects model |
lmeVpack.batch.imputed |
function to efficiently test associations between a continuous trait and a batch of imputed SNPs in families using Linear Mixed Effects model |
qq |
function to make Qantile-Qantile (QQ) plot for p-values |