gaston (version 1.2)

read.vcf: Create a bed.matrix from VCF files

Description

Create a bed.matrix from a .vcf file.

Usage

read.vcf(filename, max.snps, verbose = getOption("gaston.verbose",TRUE))

Value

A bed.matrix

Details

This function relies on the package WhopGenome. Details about vcf format are given in http://www.1000genomes.org/wiki/Analysis/Variant%20Call%20Format/vcf-variant-call-format-version-41

See Also

read.bed.matrix

Examples

# Read vcf file
filepath <-system.file("extdata", "LCT.vcf.gz", package="gaston")
x <- read.vcf( filepath )
x