A Nextflow pipeline for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics), with a focus on ncov2019
GNU Affero General Public License v3.0
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Handle variants with consequence type 'stop_retained' as synonymous variants. #91
Fixes #90
Check for both
synonymous
andstop_retained
consequence types intype_vcf.py
. Handle both as synonymous variants.