Hi can any one recommend any software for working with phased VCF files?
I've a complete 4 generation pedigree (Grandparents, Parents, Proband, Children) which I've phased using a couple of methods (GATK PhaseByTransmission, RTG Pedigree Phasing, Beagle4) and I'm looking for a good way to visualize the flow of genotypes/haplotypes through the pedigree.
Programs that take in other formats would be welcome as well (assuming it's not too hard to convert VCF to their format).
Otherwise looks like I'll need to do some coding...
Thanks!