FamSKAT-RC is a family-based association kernel test for both rare and common variants. This test is general and several special cases are known as other methods: famSKAT, which only focuses on rare variants in family-based data, SKAT, which focuses on rare variants in population-based data (unrelated individuals), and SKAT-RC, which focuses on both rare and common variants in population-based data. When one applies famSKAT-RC and sets the value of phi to 1, famSKAT-RC becomes famSKAT. When one applies famSKAT-RC and set the value of phi to 1 and the kinship matrix to the identity matrix, famSKAT-RC becomes SKAT. When one applies famSKAT-RC and set the kinship matrix (fullkins) to the identity matrix (and phi is not equal to 1), famSKAT-RC becomes SKAT-RC. We also include a small sample synthetic pedigree to demonstrate the method with. For more details see Saad M and Wijsman EM (2014) <doi:10.1002/gepi.21844>.
Khalid B. Kunji [aut, cre], Mohamad Saad [aut]
Maintainer: Khalid B. Kunji <[email protected]>
Saad M and Wijsman EM (2014) Combining family- and population-based imputation data for association analysis of rare and common variants in large pedigrees. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4190076/
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