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sanjeevksh 05-13-2016 03:59 PM

vcf to gvf conversion
 
Dear All,
Is there any tool available to convert vcf file to gvf file?
Regards,

Genos 07-04-2016 06:28 PM

it's impossible.

If the vcf file only have filtered variant information, you don't have enough information to generate a gvcf file that covers all loci in the genome.

dan 07-19-2016 12:45 AM

Hi,

I also have a 'genomic VCF', that /does/ cover all loci in the genome... Is it still impossible?


Thanks,

Medhat 07-19-2016 02:30 AM

http://www.yandell-lab.org/software/vaast.html

have such tool

dan 07-19-2016 07:29 AM

Which?
http://www.yandell-lab.org/software/index.html

Medhat 07-19-2016 08:28 AM

Quote:

Originally Posted by dan (Post 196909)

this one VAAST

sanjeevksh 07-30-2016 02:56 AM

Thanks for the replies. However, I was looking for a vcf to gvf converter and not to gvcf. I found very useful set of scripts located here: https://github.com/cfljam/galaxy-pcr-markers

Regards,


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