How To Convert .Ped To .Vcf File
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12.1 years ago
cbm ▴ 20

Hi,

I have tried using plink seq to convert a .ped file to a .vcf file. The result was completely wrong. I might have to write my own PERL script to do it, but thought I would ask if anyone has seen an available tool that would be able to do this. Thanks

vcf ped • 20k views
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I have a PLINK to GVF conversion script. Maybe you could find a GVF to VCF script? Alternatively you could check out http://www.cmpg.unibe.ch/software/PGDSpider/

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is it possible to use pypedia online? I want a tab delimeted file to convert to vcf format. The output is from fpfilter.pl . But how do I do it online? Just giving the path?

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6.2 years ago

Updated answer: plink2 now has a --recode vcf option: https://www.cog-genomics.org/plink/1.9/data#recode

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