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HKU-BAL / Clair3

Clair3 - Symphonizing pileup and full-alignment for high-performance long-read variant calling
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Polyploid variant calling #217

Closed EmilioKolo closed 1 year ago

EmilioKolo commented 1 year ago

Hi, I am using Clair3 on targeted amplicon sequencing data and our amplicon can have duplications and/or deletions. Is there a way to especify polyploid variant calling so that the program looks for more than 2 alleles? Thanks in advance

aquaskyline commented 1 year ago

Basically, no. Clair3 applies a strong diploid assumption to its output.