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= Introduction =

= Introduction =

The Variant Call Format (VCF) is a flexible file format specification that allows us to represent many different variant types ranging from SNPs, Indels to Copy Number Variations.  However, variant representation in VCF is non-unique for Indels, a failure to recognize this and handling it appropriately will ofttimes result in inaccurate analyses.

The Variant Call Format (VCF) is a flexible file format specification that allows us to represent many different variant types ranging from SNPs, Indels to Copy Number Variations.  However, variant representation in VCF is non-unique for Indels, a failure to recognize this and handling it inappropriately will ofttimes result in inaccurate analyses.

Here, we describe a variant normalization procedure that is well defined for biallelic as well as multiallelic variants.  We provide a formal proof of correctness  

Here, we describe a variant normalization procedure that is well defined for biallelic as well as multiallelic variants.  We provide a formal proof of correctness