MKM_Null_Model

A vector of quantitative trait in the analysis (class: vector). The order should match the vector yid. No missing.

phenotype

A vector of multivariate traits (class: vector). The order should match the vector yid. No missing.

trait

A vector of id (class: vector). Although it doesn't have to be sorted, observations from the same subject have to be connected with each other. The repeated id numbers indicate multiple traits for one subject. Make sure it is not a factor. No missing.

A matrix of covariates (class: data.frame). The order of rows should match the vector yid. Default NULL. No missing.

covariates

Whether assume equal covariates effects on different traits (Default=False).

eq.cov.effect

This function (MKM) is used to perform KM analysis (Tzeng et al. 2012) for multiple (two) quantitative traits in GWAS data. 
# It considers variances of trait 1 and 2, and covariance between trait 1 and 2

Gene based association test between a group of SNPs and traits
including familial (both continuous and binary) traits, multivariate
continuous (both independent and familial) traits and longitudinal
continuous traits. Part of methods were previously published in Maity et al
(2012) <doi:10.1002/gepi.21663>, Chen et al (2013)
<doi:10.1002/gepi.21703>, Yan et al (2015) <doi:10.1159/000375409>, Yan et
al (2015) <doi:10.1534/genetics.115.178590> and Yan et al (2015)
<doi:10.1159/000445057>.

MKM_Null_Model: KM for Multiple Quantitative Traits in GWAS Data (fit null model)

Description

Usage

Arguments

Value