Convert haploid chrX to homozygous diploid in VCF

Question

[ThunderPhoenix]

Hey everyone, I have a file where phasing using Beagle fails due to some variants in chrXs being haploid. I found out that beagle requires them to be diploid. Is there any script that can accomplish this reliably?

Thanks!

[Pierre Lindenbaum]

Using bcftools to change ploidy level in vcf files