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Hi forum,
can anyone recommend a program to determine haplotypes in unrelated individuals using variants identified after NGS. I have 2 patient groups and sequenced 5 unrelated individuals in each group. I have a vcf output for each patient and now I wish to determine any variants/the haplotype that are present solely in one patient population,
many thanks in advance,
jcgrant31
PS - I should point out that I have targeted 1MB of DNA prior to sequencing and that there are on average 1200 variants per individual (too may to go through each one by eye!)
can anyone recommend a program to determine haplotypes in unrelated individuals using variants identified after NGS. I have 2 patient groups and sequenced 5 unrelated individuals in each group. I have a vcf output for each patient and now I wish to determine any variants/the haplotype that are present solely in one patient population,
many thanks in advance,
jcgrant31
PS - I should point out that I have targeted 1MB of DNA prior to sequencing and that there are on average 1200 variants per individual (too may to go through each one by eye!)