Tool for Variant Normalization nomenclature

Question

[sacha]

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.

Answer 1

[Devon Ryan]

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

[Medhat]

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

[Devon Ryan]

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.