predict.megaEnv function

Compute BLUPS based on a set of mega environments

This function calculates Best Linear Unbiased Predictors (BLUPS) and associated standard errors based on a set of mega environments.

## S3 method for class 'megaEnv'
predict(
  object,
  ...,
  trials = names(object$TD),
  useYear = FALSE,
  engine = c("lme4", "asreml")
)

Arguments

• object: An object of class megaEnv.
• ...: Further parameters passed to either asreml or lmer.
• trials: A character string specifying the trials to be analyzed. If not supplied, all trials are used in the analysis.
• useYear: Should year be used for modeling (as years within trials). If TRUE, TD should contain a column "year".
• engine: A character string specifying the engine used for modeling.

Returns

A list consisting of two data.frames, predictedValue

containing BLUPs per genotype per mega environment and standardError

containing standard errors for those BLUPs.

Examples

## Compute mega environments for TDMaize.
geMegaEnv <- gxeMegaEnv(TD = TDMaize, trait = "yld")

## Compute BLUPS and standard errors for those mega environments.
megaEnvPred <- predict(geMegaEnv)
head(megaEnvPred$predictedValue)
head(megaEnvPred$standardError)

See Also

Other mega environments: gxeMegaEnv(), plot.megaEnv()