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Raw VCF #599

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sydelstan opened this issue Nov 4, 2024 · 0 comments
Open

Raw VCF #599

sydelstan opened this issue Nov 4, 2024 · 0 comments

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@sydelstan
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I am interested in low frequency/mixed read SNP calls. My understanding is that final VCF only reports fixed SNPs, so I am interested in analyzing the calls from the .raw.vcf file. This VCF has not undergone Freebayes filtering, so I am wondering what processing has been completed to generate the .raw.vcf file so I know what QC should be performed before proceeding.
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@sydelstan