How To Generate Two Haplotypes Using Velvet
Hi everyone,
I use velvet to do de novo assembly on a particular region (in a bam file) and this region contain a heterozygous Indel. I think it should generate two contigs (represent two haplotypes of the genome), but it only generation one, can anyone explain it for me.
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It won't work, and it's not velvet's fault I'm afraid. That's not what velvet is trying to do. Its goal is to produce a whole genome consensus, not to distinguish haplotypes.
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