h2_mzdz: Heritability estimation according to twin correlations

In gap: Genetic Analysis Package

Heritability estimation according to twin correlations

Description

Heritability estimation according to twin correlations

Usage

h2_mzdz(
  mzDat = NULL,
  dzDat = NULL,
  rmz = NULL,
  rdz = NULL,
  nmz = NULL,
  ndz = NULL,
  selV = NULL
)

Arguments

mzDat	a data frame for monzygotic twins (MZ).
dzDat	a data frame for dizygotic twins (DZ).
rmz	correlation for MZ twins.
rdz	correlation for DZ twins.
nmz	sample size for MZ twins.
ndz	sample size for DZ twins.
selV	names of variables for twin and cotwin.

Details

Given MZ/DZ data or their correlations and sample sizes, it obtains heritability and variance estimates under an ACE model as in \Sexpr[results=rd]{tools:::Rd_expr_doi("10.1038/s41562-023-01530-y")} and \insertCitekeeping95;textualgap.

Value

A data.frame with variables h2, c2, e2, vh2, vc2, ve2.

References

\insertRef

elks12gap

\insertAllCited

Examples

## Not run: 
library(mvtnorm)
set.seed(12345)
mzm <- as.data.frame(rmvnorm(195, c(22.75,22.75),
                     matrix(2.66^2*c(1, 0.67, 0.67, 1), 2)))
dzm <- as.data.frame(rmvnorm(130, c(23.44,23.44),
                     matrix(2.75^2*c(1, 0.32, 0.32, 1), 2)))
mzw <- as.data.frame(rmvnorm(384, c(21.44,21.44),
                     matrix(3.08^2*c(1, 0.72, 0.72, 1), 2)))
dzw <- as.data.frame(rmvnorm(243, c(21.72,21.72),
                     matrix(3.12^2*c(1, 0.33, 0.33, 1), 2)))
selVars <- c('bmi1','bmi2')
names(mzm) <- names(dzm) <- names(mzw) <- names(dzw) <- selVars
ACE_CI <- function(mzData,dzData,n.sim=5,selV=NULL,verbose=TRUE)
{
  ACE_obs <- h2_mzdz(mzDat=mzData,dzDat=dzData,selV=selV)
  cat("\n\nheritability according to correlations\n\n")
  print(format(ACE_obs,digits=3),row.names=FALSE)
  nmz <- nrow(mzData)
  ndz <- nrow(dzData)
  r <- data.frame()
  for(i in 1:n.sim)
  {
    cat("\rRunning # ",i,"/", n.sim,"\r",sep="")
    sampled_mz <- sample(1:nmz, replace=TRUE)
    sampled_dz <- sample(1:ndz, replace=TRUE)
    mzDat <- mzData[sampled_mz,]
    dzDat <- dzData[sampled_dz,]
    ACE_i <- h2_mzdz(mzDat=mzDat,dzDat=dzDat,selV=selV)
    if (verbose) print(ACE_i)
    r <- rbind(r,ACE_i)
  }
  m <- apply(r,2,mean,na.rm=TRUE)
  s <- apply(r,2,sd,na.rm=TRUE)
  allr <- data.frame(mean=m,sd=s,lcl=m-1.96*s,ucl=m+1.96*s)
  print(format(allr,digits=3))
}
ACE_CI(mzm,dzm,n.sim=500,selV=selVars,verbose=FALSE)
ACE_CI(mzw,dzw,n.sim=500,selV=selVars,verbose=FALSE)

## End(Not run)

gap documentation built on Sept. 11, 2024, 5:36 p.m.