Split phased haplotypes of same person coming from same parents
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16 months ago
Parham ★ 1.6k


I have phased haplotypes of two samples from same person. However, since they are coming from malignant and healthy tissue, the genotypes might slightly be different. I would like to split the Hapcut2 phased bam files according to parental haplotypes and then compare the haplotypes coming from each parent to its respective one. So like, healthy paternal haplotype to malignant paternal haplotype. The main question is: How to compare haplotypes together and conclude that they are coming from same parent (mother or father) based on the different snps/indels they have? What procedure do you recommend and if there is any software that does it please share. Thank you in advance!

variant haplotype snp indel • 334 views

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