Geno: Convert VCF to genotype matrix

In nspope/r2vcftools: An R interface for vcftools

Description

Given a "vcfLink" object, converts the VCF file to genotype matrix format. Doing so involves dropping indels and multiallelic SNPs, so this fuction returns a new vcfLink object that has been appropriately subset.

Usage

Geno(object, ...)

## S4 method for signature 'vcfLink'
Geno(object, output.file, verbose = TRUE)

Arguments

object	an object of class "vcfLink"
output.file	the filename to save the genotype matrix to
verbose	print stdout from vcftools?

nspope/r2vcftools documentation built on Oct. 10, 2019, 2:06 a.m.