Extract samples from a VCF file that contain marker
Hey!
I have a vcf file from which I want to extract the samples (genotypes) that contain specific SNPs that I have in a list. That is since I ran a GWAS and came up with significant SNPs that might explain my phenotype. I want to see if the SNPs are correlated and for that, I only want to keep the genotypes that contain such SNPS.
Is it possible to use bcftools for that?
Thank you in advance!
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WouterDeCoster
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Cèlia •
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Cèlia •
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Possibly you mean Use bcftools to find carriers of variants