crossValFold: Single fold of a cross-validation
In INRA/rgs3: R package wrapping the GS3 program for genomic selection

Description Usage Arguments Value Author(s) See Also

Perform a single fold of a K-fold cross-validation with GS3.

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crossValFold(task.id, rep.id, fold.ids, fold.id, valid.geno.idx.per.fold, dat,
  col.id, col.trait, binary.trait, genos, config, ped.file, afs, remove.files,
  verbose = 1)

`task.id`	character containing the task identifier used as prefix for the output files (the fold index will be added)
`rep.id`	identifier of the current replicate
`fold.ids`	vector of fold identifiers
`fold.id`	identifier of the current fold
`valid.geno.idx.per.fold`	vector indicating to which fold a given genotypes belongs (see `getPartitionGenos`)
`dat`	data frame with phenotypes
`col.id`	column identifier of the records in `dat`
`col.trait`	column identifier of the trait in `dat`
`binary.trait`	logical indicating if the trait is binary or not
`genos`	matrix of SNP genotypes
`config`	list containing the generic configuration for GS3
`ped.file`	path to the file containing the pedigree
`afs`	vector of allele frequencies which names are SNP identifiers (column names of `genos`); used to compute the variance of additive genotypic values from the variance of additive SNP effects (see Vitezica et al, 2013), then used to compute narrow-sense heritability
`remove.files`	remove files per fold (none/some/all); use `"some"` in real-life applications in order to keep estimates of SNP effects per fold, thereby allowing to perform genomic prediction afterwards by averaging them
`verbose`	verbosity level (0/1/2)