Description Usage Arguments Value Author(s) Examples

This function performs family based marker set based association (score test) based on the GEE_SKAT.

1 | ```
gskat_score_pert(pedDat,F1=FALSE,pw="Rade",np=10000)
``` |

`pedDat` |
Input Family Data: A list including four data matrix: ID, y, X, Z. ID: Pedigree ID matrix. The four columns are the Family ID (FID), Individual ID (IID), Paternal ID (FAT), Maternal ID (MAT), respectively. y: binary phenotype coded as 0, 1 X: covaraite matrix, including the intercept column Z: SNP genotypes coded 0/1/2 (minor allele count). |

`F1` |
If TRUE, use identity working corr. matrix |

`pw` |
Perturbation method."Rade":Rademacher; "Norm": Normal distribution |

`np` |
number of perturbed samples. default=10000 |

`pval` |
Returns p-value |

`Ts` |
Score statistic |

`mu_Ts` |
Theoretical mean of Ts |

`var_Ts` |
Theoretical variance of Ts |

`PM` |
Empirical mean of Ts based on the perturbation |

`PV` |
Empirical variance of Ts based on the perturbation |

Xuefeng Wang

1 |

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