vcftools-compare 0.1.16

Compares positions in two or more VCF files and outputs the numbers of positions contained in one but not the other files; two but not the other files, etc, which comes handy when generating Venn diagrams.

Quick Start

Test Data

Test data for this app appears directly in the Discovery Environment in the Data window under Community Data -> iplantcollaborative -> example_data ->vcftools

Input Files


  • 20150518-173953-GVCF_Chr01.vcf.gz

  • 20150518-173953-GVCF_Chr01.vcf.gz.tbi

  • 20150518-173953-GVCF_Chr02.vcf.gz

  • 20150518-173953-GVCF_Chr02.vcf.gz.tbi



There are no required parameters.


Output Files

This analysis should generate one output file; a merged VCF file made from the input files:

  • compare_output.txt

Tool Source for App