Can Read Back Phased genotypes be used to extend the haplotype blocks with Beagle, Shapeit, FastPhase etc?
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5.7 years ago
kirannbishwa01 ★ 1.4k

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,

Beagle ShapeIt FastPhase ReadBackPhasing Haplotype • 2.2k views
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