R Packages

Summary statistics-based mixed effects score test

• sMiST

Regularized regression approach to gene-set or pathway analysis of GWAS data (SNPath)

• SNPath source code
• SNPath tutorial

Set-based mixed effects score test (MiST)

• MiST vignette
• MiST R Package (2019)

Set-based mixed effects score test for GxE interaction (MiSTi)

• MiSTi vignette
• MiSTi R package (2019)

Analytical power calculations for case-control studies of candidate gene and GWAS (powerGWAS interaction)

• Power GWAS interaction
• Power GWAS source code
• These can also be downloaded here

Empirical-Bayes (EB) estimation for GxE interaction for imputed SNPs-EB 

• EB imputation documentation
• EB imputation source code