Merge two VCFs into one

Uses bcftools merge. Also requires tabix.

mergeVCFs(inPath = NULL, inVCF1, inVCF2, outPath = NULL, outName)

Arguments

outName

Value

Details

NOTICE: This function is part of a family of functions ("imputation_functions") developed as part of the NextGen Cassava Breeding Project genomic selection pipeline. For some examples of their useage:

• IITA_2021GS (should be first use of this package)

• NRCRI_2021GS

• TARI_2020GS

See also

Other imputation_functions: convertDart2vcf(), convertVCFtoDosage(), createGenomewideDosage(), filter_positions(), postImputeFilterBeagle4pt1(), postImputeFilter(), runBeagle4pt1GL(), runBeagle5(), splitVCFbyChr()