Entering edit mode
4.2 years ago
curious
▴
750
This isn't beagle specific but I was reading beagle's manual and see:
"At present, version 4 requires haploid male X-chromosome genotypes to be coded as homozygous diploid genotypes."
I started wondering, is showing males as homzygous diploid in VCFs a convention? Or at least common? It seems like it would help coding a ton for a lot of software which is kind of why I am wondering this.
https://faculty.washington.edu/browning/beagle/beagle_4.1_14Jan16.pdf
