I'm new to this area (but not to programming & algorithmics) and I want to help a friend to solve a problem (I don't need source code, I just want to understand the problem itself).
He needs a cycle to phase haplotypes ("I need find haplotype pattern(s) from SNP string"). He also said "The method is simple, I need to compare homozygot combinations (AA, BB) in sequence with haplotype chains. And ignore heterozygot pairs (AB) at their right positions."
An an input he has a SNP string and a bunch of haplotypes strings (array).
Any help is greatly appreciated.