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
To use vcftools-compare 0.1.16, import your data in vcf.gz format along with the corresponding tbi index files
Resources: https://vcftools.github.io/perl_module.html#vcf-compare
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
Use:
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
Parameters
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
https://vcftools.github.io/perl_module.html#vcf-compare