Hi,

Is it possibly to only output dosages from a generated vcf dosage file from minimac?

Input format is 

    ##fileformat=VCFv4.1
    ##filedate=2017.7.5
    ##source=Minimac3
    ##contig=<ID=29>
    ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
    ##FORMAT=<ID=DS,Number=1,Type=Float,Description="Estimated Alternate Allele Dosage : [P(0/1)+2*P(1/1)]">
    ##INFO=<ID=AF,Number=1,Type=Float,Description="Estimated Alternate Allele Frequency">
    ##INFO=<ID=MAF,Number=1,Type=Float,Description="Estimated Minor Allele Frequency">
    ##INFO=<ID=R2,Number=1,Type=Float,Description="Estimated Imputation Accuracy">
    ##INFO=<ID=ER2,Number=1,Type=Float,Description="Empirical (Leave-One-Out) R-square (available only for genotyped variants)">
    #CHROM	POS	ID	REF	ALT	QUAL	FILTER	INFO	FORMAT	1242658141	1364665948	1242658615
    29	11	Chr29:11	A	G	.	PASS	.	GT:DS	0|0:0.193	0|0:0.193	0|0:0.193


Is there an option in vcftools to output the dosages for each genotype seperatly, without the genotype call?
    bcftools query -f "%CHROM\t%POS[\t%DS]\n" minimac3.dose.vcf.gz

