r_mediation_natural: r_mediation_natural : function to simulate DNA methylation...

In jumentib/useFonc: Useful Functions

Description

r_mediation_natural : function to simulate DNA methylation data for mediation analyzis (based on NaturalGWAS model)

Usage

r_mediation_natural(meth = NULL, eff.size.x = 100, eff.size.y = 100,
  n.x = 10, n.y = 10, n.xy = 5, k = NULL, chr = NULL,
  pos = NULL, window = 101, pca = NULL)

Arguments

meth	: methylation matrix
eff.size.x	: effect size of X on M
n.x	: number of causal CpGs associated with X
n.y	: number of causal CpGs associated with y
n.xy	: number of true mediators
k	: number of latent factors (need to be estimated with a pca)
chr	: chromosome
pos	: chromosome position
window	: distance between causal CpGs
pca	: a former pca with svd() function, speed the simulation (NULL by default)
eff.size.x	: effect size of Y on M

Details

Adaptation of the "simu_pheno" function of the "naturalgwas" package to simulate mediation data in high dimension

Value

causal.x : set of CpGs associated with the exposure

causal.y : set of CpGs associated with the outcome

causal.xy : set of true mediators

X : simulate phenotype

Y : simulate outcome

Examples

# Simulate data :

jumentib/useFonc documentation built on Nov. 18, 2019, 3:17 p.m.