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)) 

Arguments

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

Value

A bed.matrix

Author(s)

Herv<c3><83><c2><a9> Perdry and Claire Dandine-Roulland

See Also

read.bed.matrix

Examples

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

Results