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Compares the snps in two or more VCF files.

Project Description

Compares the snps in two or more VCF files.

The compare-vcf software was developed by the United States Food and Drug Administration, Center for Food Safety and Applied Nutrition.


  • Compares the snps in two or more VCF files.
  • Lists the snps that are unique to each VCF file with full genotype information per snp.
  • Lists the snps that are missing from each VCF file if present in at least two other VCF files.
  • Generates Venn diagrams of all pairs of VCF files.

Citing compare-vcf

To cite compare-vcf, please reference the compare-vcf GitHub repository:


See the LICENSE file included in the compare-vcf distribution.


0.1.0 (2016-02-08)

  • First release on PyPI.

Release History

This version
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Source Feb 8, 2016

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