Question: VCF comparison: shared variants
0
gravatar for deniselavezzari
11 months ago by
deniselavezzari0 wrote:

Hi! Is there a way to compare two vcf not only by position, but also for the genotypes? I want to extract from two vcf files the variants shared by both individuals, having not only the same position but also the same genotype. Thanks

sequencing snp genome • 238 views
ADD COMMENTlink modified 9 months ago by Biostar ♦♦ 20 • written 11 months ago by deniselavezzari0
1

merge your VCFs and filter. https://www.google.com/search?q=how+to+merge+vcf+site%3Abiostars.org

ADD REPLYlink written 11 months ago by Pierre Lindenbaum133k
1

You can try this tool: https://github.com/imgag/ngs-bits/blob/master/doc/tools/SampleSimilarity/index.md

ADD REPLYlink written 11 months ago by German.M.Demidov1.9k
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