Unique Variants for a sample
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17 months ago
kat.bi • 0

I have multiple .vcf files for different samples/ IDs. I need the unique set of variants or entries for a particular sample alone excluding the variants existing in all other samples. So could bcftools/ any other tools help with that? Which are the fields in VCF that I would need to consider to achieve this?

vcf snp bcftools • 865 views
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you want bcftool isec

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I used that, but only giving few fields in output. How to get all fields as in the original .vcf?

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Can you help more elaborately on further commands to filter/query using isec based on allele uniquenes as I'm getting large no. of samples after isec --complement? @Pierre Lindenbaum

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