Read variant call format data — readVcf • statgenGWAS

Read variant call format (VCF) data and save in gData format. This is a wrapper around vcfR::read.vcfR in the package vcfR. This package needs to be installed for the function to work.

Usage

readVcf(vcfFile, ...)

Arguments

vcfFile: The name of the vcf file. This can either be a plain text file with extension (.vcf), or a gzipped file with extencion (.vcf.gz).
...: Further arguments passed to vcfR::read.vcfR.

Value

An object of class gData.

References

Knaus BJ, Grünwald NJ (2017). “VCFR: a package to manipulate and visualizevariant call format data in R.” Molecular Ecology Resources, 17(1), 44-53. ISSN 757, doi:10.1111/1755-0998.12549 .