vcftools-merge 0.1.16

vcftools-merge merges two or more VCF files into one so that, for example, if two source files had one column each, on output will be printed a file with two columns. See also vcf-concat for concatenating VCFs split by chromosome.

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_Chr02.vcf.gz

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

  • 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:

  • merged.vcf

Tool Source for App