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Old 02-19-2013, 04:23 AM   #7
Vanisha
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Location: London

Join Date: Nov 2009
Posts: 21
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Try this:
--vcf file.vcf --out file.plink --plink

However, it might be better instead of converting vcf to plink and then doing plink analysis, just use vcftools to do the plink QC; the format will still be VCF, and then use the QC'd VCF to perform any downstream analysis
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