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Tool for Variant Normalization nomenclature

Is there a tool to normalize variant from a vcf file ? I read this : http://genome.sph.umich.edu/wiki/Variant_Normalization , but I am looking for a tool which did the job.

vcf variant normalization
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updated by Devon Ryan Devon Ryan • written by sacha sacha

1 answer

They used vt, since that's the group that wrote it.

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written by Devon Ryan Devon Ryan

Did you used it before? If so what was the difference in result?

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written by Medhat Medhat

I rarely work with VCF files, so I've not needed to use vt. I'm not sure if there's a big difference to the output produced by the various read normalization programs.

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written by Devon Ryan Devon Ryan

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