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Is there a replacement for argument '--multiallelic' for Unified Genotyper?

takadonettakadonet Member
edited October 2012 in Ask the GATK team

Is there a new argument to replace '--multiallelic' . I am trying to determine all valid alternative alleles for a single position even if the call is the same as the reference. Both the sample(s) and the reference are haploid bacterial genomes.

Thanks!

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