DT_h2: Broad sense heritability calculation.

In sommer: Solving Mixed Model Equations in R

Broad sense heritability calculation.

Description

This dataset contains phenotpic data for 41 potato lines evaluated in 5 locations across 3 years in an RCBD design. The phenotypic trait is tuber quality and we show how to obtain an estimate of DT_h2 for the trait.

Usage

data("DT_h2")

Format

The format is: chr "DT_h2"

Source

This data was generated by a potato study.

References

Covarrubias-Pazaran G (2016) Genome assisted prediction of quantitative traits using the R package sommer. PLoS ONE 11(6): doi:10.1371/journal.pone.0156744

See Also

The core functions of the package mmer and mmec

Examples

####=========================================####
#### For CRAN time limitations most lines in the 
#### examples are silenced with one '#' mark, 
#### remove them and run the examples
####=========================================####
data(DT_h2)
DT <- DT_h2
head(DT)
####=========================================####
#### fit the mixed model (very heavy model)
####=========================================####
# ans1 <- mmer(y~Env,
#               random=~vsr(dsr(Env),Name) + vsr(dsr(Env),Block),
#               rcov=~vsr(dsr(Env),units),
#               data=DT)
# summary(ans1)$varcomp
# 
# DT=DT[with(DT, order(Env)), ]
# ans1b <- mmec(y~Env,
#              random=~vsc(dsc(Env),isc(Name)) + vsc(dsc(Env),isc(Block)),
#              rcov=~vsc(dsc(Env),isc(units)),
#              data=DT)
# summary(ans1b)$varcomp

sommer documentation built on Sept. 11, 2024, 6:22 p.m.