Question: Can Read Back Phased genotypes be used to extend the haplotype blocks with Beagle, Shapeit, FastPhase etc?
1
kirannbishwa01 • 1.1k wrote:
I have read back phased vcf files from several individuals. So there are several haplotype blocks which are not joined. I want to use this RBphased vcf to transfer phase information between individuals. So, a haplotype block which has been resolved by RBphase need not be changed but should only extended by comparing the phase in other samples. Also, I have no reference panel.
Is it possible using Beagle, ShapeIt, FastPhase or any other phasing software?
Thanks,