sommer: DT_fulldiallel – R documentation

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DT_fulldiallel

Full diallel data for corn hybrids

Description

This dataset contains phenotpic data for 36 winter bean hybrids, coming from a full diallel design and evaluated for 9 traits. The column male and female origin columns are included as well.

Usage

data("DT_fulldiallel")

Format

The format is: chr "DT_fulldiallel"

Source

This data was generated by a winter bean study and originally included in the agridat package.

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

Examples

####=========================================####
#### For CRAN time limitations most lines in the
#### examples are silenced with one '#' mark,
#### remove them and run the examples
####=========================================####
data(DT_fulldiallel)
DT <- DT_fulldiallel
head(DT)
mix <- mmer(stems~1, random=~female+male, data=DT)
summary(mix)

####=========================================####
####=========================================####
#### Multivariate model example
####=========================================####
####=========================================####

data(DT_fulldiallel)
DT <- DT_fulldiallel
head(DT)

mix <- mmer(cbind(stems,pods,seeds)~1,
             random=~vs(female) + vs(male),
             rcov=~vs(units),
             data=DT)
summary(mix)
#### genetic variance covariance
cov2cor(mix$sigma$`u:female`)
cov2cor(mix$sigma$`u:male`)
cov2cor(mix$sigma$`u:units`)

sommer

Solving Mixed Model Equations in R

v4.1.3

GPL (>= 2)

Authors

Giovanny Covarrubias-Pazaran

Initial release

2021-04-01