vcf-parser

Parse VCF files to r/qtl2 file format

build

The makefile only works for the macos Dlang compiler (ldc2) currently.

git clone https://github.com/rroutsong/vcf-parser.git
cd vcf-parser
make

Run

The --output flag defaults to vcf_csv_out.txt

Imputed

./build/vcf_parser -i --file=data/gatk_wgs.vcf --output=output.txt

No imputation

./build/vcf_parser --file=data/gatk_wgs.vcf --output=output.txt