Compare PHG variants to existing variants

Quick Start

1. Change Truth_set.vcf, param3, and param4 in your config file to match file paths on your computer.
2. Run phg VCF_compare [config.txt]

Process Details

This process does not exist formally at the moment. But one can imagine basically specifying a trustworth VCF with high confidence SNPs and comparing to those variants imputed from PHG and computing accuracy.

Kitchen Sink

Troubleshooting

Return to Step 3 pipeline

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