Homozygous reference variants #239
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Hello! I have a question - does Open-CRAVAT annotate homozygous reference (0/0) variants? |
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Answered by
jasminebro
Feb 14, 2024
Replies: 1 comment
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Hi @kkmarkel. OpenCravat does not annotate 0/0 variants. If you are using a local installation of OpenCravat, you can look at the input_filename_vcf.err file in your job directory to see which lines were skipped. A work around could be to edit the vcf and add a fake sample that 1/1 for every variant. |
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Answer selected by
jasminebro
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Hi @kkmarkel. OpenCravat does not annotate 0/0 variants. If you are using a local installation of OpenCravat, you can look at the input_filename_vcf.err file in your job directory to see which lines were skipped.
A work around could be to edit the vcf and add a fake sample that 1/1 for every variant.