qMSAT is a powerful test that directly incorporates sequencing qualities in association tests with multiple rare variants. It allows for the adjustment of additional covariates and is robust towards the inclusion of noncausal variants and variants having effects with different magnitudes and directions. Furthermore, it can coherently account for missing genotypes and conjoin in a principled way individuals or variants sequenced at varying coverage depths.
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- R Package
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Nucleic Acids Res. 2012 Apr;40(8):e60. doi: 10.1093/nar/gks024. Epub 2012 Jan 19.
A powerful test for multiple rare variants association studies that incorporates sequencing qualities.
Daye ZJ, Li H, Wei Z.