quercus.df {dmm}

Quercus example dataset

Description

Example dataset from the program package 'QUERCUS', developed by Ruth G. Shaw and Frank H. Shaw. Known to 'quercus' as the 'demo2' dataset.

Usage

data(quercus.df)

Format

A data frame with 180 observations on the following 6 variables.

Id

Identifier for individuals

SId

Identifier for sires of individuals

DId

Identifier for dams of individuals

Sex

A numeric vector: code for Sex of each individual

Trait1

A numeric vector: an observation called Trait1

Trait2

A numeric vector: an observation called Trait2

Details

This is a simulated dataset suitable for a 3-component analysis, the components being environmental variance, additive genetic variance, and dominance genetic variance. It needs pre-processing with function mdf() to add base animals, to combine the two traits into a matrix, and to calculate additive and dominance relationship matrices.

Source

https://cbs.umn.edu/eeb/about-eeb/helpful-links/quercus-quantitative-genetics-software

Examples

library(dmm)
data(quercus.df)
str(quercus.df)
# preprocess
quercus.mdf <- mdf(quercus.df,pedcols=c(1:3),factorcols=4,ycols=c(5:6),
               relmat=c("E","A","D"),sexcode=c(1,2))
str(quercus.mdf)
# cleanup
rm(quercus.df)
rm(quercus.mdf)
#
# there is a full analysis of this dataset in 'dmmOverview.pdf'.
#