gskat_score: Perform GEE_SKAT Score Test

In gskat: GEE_KM

Description

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

Usage

gskat_score(pedDat,F1=FALSE)

Arguments

pedDat	Input Family Data: A list including four data matrix: ID, y, X, Z. ID: Pedigree ID matrix, having four columns are the Family ID (FID), Inidvidual 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

Value

pval	Returns p-value
ifault	fault indicator from the davies method: 0: no error, 1: requested accuracy could not be obtained, 2: round-off error possibly significant, 3: invalid parameters, 4: unable to locate integration parameters

Author(s)

Xuefeng Wang

Examples

		gskat_score(gdata)

Example output

Loading required package: CompQuadForm
Loading required package: e1071
Loading required package: gee
Loading required package: geepack
Loading required package: Matrix
$pval
[1] 0.01121034

$ifault
[1] 0

gskat documentation built on May 2, 2019, 5:51 a.m.