How To Generate Two Haplotypes Using Velvet
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Entering edit mode
9.7 years ago
lyz10302012 ▴ 400

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.

denovo assembly • 2.0k views
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Entering edit mode
9.7 years ago

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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