I know 3 haplotypes composed of 4 SNPs, which I have human data on. So how do I infer haplotypes per person?
I know 3 common haplotypes of the COMT gene composed of 4 SNPs in the gene. I have human data on these 4 SNPs, so I have two nucleotides per SNP, but now I have to match these data to the actual haplotypes. What tool should I use to do this, or should I just write my own function in R? I have been searching but I end up finding Linux tools, which seem to be made to reconstruct haplotypes, e.g. Eagle, Beagle, rather than match SNP data to those haplotypes. I don't even know what this problem of matching SNPs to haplotypes is called, making it harder for me to find the right tool. Thanks in advance.
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