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vibansal / HapCUT2

software tools for haplotype assembly from sequence data
BSD 2-Clause "Simplified" License
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is this tool suitable for Creating a phased VCF of proximal variants? #119

Open gudeqing opened 3 years ago

gudeqing commented 3 years ago

Hi, I am wondering if this tools is suitable for Creating a phased VCF of proximal variants? This is a step required by pvacseq tool： https://pvactools.readthedocs.io/en/latest/pvacseq/input_file_prep/proximal_vcf.html

vibansal commented 3 years ago

hapcut2 can phase variants based on information from sequence reads, this should phase proximal variants. It also outputs a phased VCF, so it should work for your requirement.