fillData: Filling gaps for a dataset to balance

Description

fillData creates a balanced dataset in the long format to be used with the lmebreed solver for multi-trait models.

Usage

fillData(data, toBalanceSplit=NULL, toBalanceFill=NULL)

Value

$res: a data frame with traits in long format.

Arguments

data: a data frame with traits in wide format.
toBalanceSplit: variable to split the dataset for balancing.
toBalanceFill: variable of the factor to balance across the levels of the toBalanceSplit variable.

Author

Giovanny Covarrubias-Pazaran

References

Giovanny Covarrubias-Pazaran (2024). lme4breeding: enabling genetic evaluation in the age of genomic data. To be submitted to Bioinformatics.

Douglas Bates, Martin Maechler, Ben Bolker, Steve Walker (2015). Fitting Linear Mixed-Effects Models Using lme4. Journal of Statistical Software, 67(1), 1-48.

Examples

Run this code


DT <- DT_example
A <- A_example
DT2 <- fillData(DT , toBalanceSplit="Env", toBalanceFill="Name" )
head(DT2)

# \donttest{

## Compound simmetry (CS) model
ans2 <- lmebreed(Yield~Env+ (0+Env|Name),
                 relmat = list(Name=A),
                 rotation = TRUE,
                 data=DT2)
vc <- VarCorr(ans2); print(vc,comp=c("Variance"))

BLUP <- ranef(ans2, condVar=TRUE)$Name
SEs <- attr(BLUP, which="postVar")[,,]

# }

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