Skip to contents

Mixed model analysis of GxE table of means

gxeVarComp()
Mixed model analysis of GxE table of means
plot(<varComp>)
Plot function for class varComp
predict(<varComp>)
Predictions based on a fitted varComp model.
vc()
Extract variance components
herit()
Calculate heritability
CRDR()
Calculate the correlated response to selection
correlations()
Compute different types of correlations.
diagnostics()
Get diagnostics for an object of class varComp

Finlay-Wilkinson

gxeFw()
Finlay-Wilkinson analysis
plot(<FW>)
Plot function for class FW
report(<FW>)
Report method for class FW
fitted(<FW>)
Extract fitted values.
residuals(<FW>)
Extract residuals.

AMMI

gxeAmmi()
AMMI analysis
plot(<AMMI>)
Plot function for class AMMI
report(<AMMI>)
Report method for class AMMI
fitted(<AMMI>)
Extract fitted values.
residuals(<AMMI>)
Extract residuals.

GGE

gxeGGE()
GGE analysis

Identifying mega environments

gxeMegaEnv()
Form mega environments based on fitted values from an AMMI model
plot(<megaEnv>)
Plot function for class megaEnv
predict(<megaEnv>)
Compute BLUPS based on a set of mega environments

Stability measures

gxeStability()
Calculate stability coefficients for genotype-by-environment data
plot(<stability>)
Plot function for class stability
report(<stability>)
Report method for class stability

Modeling of heterogeneity of genetic variances and correlations

gxeVarCov()
Selects the best variance-covariance model for a set of trials
plot(<varCov>)
Plot function for class varCov
report(<varCov>)
Report method for class varCov
fitted(<varCov>)
Extract fitted values.
residuals(<varCov>)
Extract residuals.

Example data

dropsPheno
DROPS data set
TDMaize
Field data for a maize experiment in Tlaltizapan, Mexico

Internal helper functions

multMissing()
Estimate missing values in multivariate data