Generate a report summarizing drug resistance markers detected in a given set of variant calls.
Workflow for analyzing drug resistance markers using variant data called by Oxford Nanopore long-reads. The workflow annotates variant calls, then searches for known drug resistance markers and summarizes this information in a report.
The workflow takes an input VCF file and information about the path where the output report should be saved.
VCF file to analyze for drug resistance markers
Prefix for output directory
GCS output root directory
The workflow outputs a drug resistance report in txt format in the specified GCS output bucket and path.
Summary report of drug resistance markers identified in the VCF file