How to write phased genotypes back to vcf file

MinzhuXie / H-PoPG

H-PoP and H-PoPG: Heuristic Partitioning Algorithms for Single Individual Haplotyping of Polyploids

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How to write phased genotypes back to vcf file #4

Closed OlenaMaiakovska closed 5 years ago

OlenaMaiakovska commented 5 years ago

After obtaining phased file I need to get consensus fasta sequence for each haplotype and I suppose I can do it through conversation of generated phased file information back to genotype information in vcf file according to SNP positions. How it can be done? Any suggestions?

MinzhuXie commented 5 years ago

Please see the new version H-PoPGv0.2.0.jar, which could output the detailed information about SNP positions, DNA bases of haplotypes with option "-d filename"