A Nextflow pipeline for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics), with a focus on ncov2019
adds top level summary key to report JSON containing the key completeness, which is a 1 d.p. rounded percentage of assembly completeness calculated using totalMissing from nextcladeOutputJson and the hardcoded length of MN908947.3
adds top level
summary
key to report JSON containing the keycompleteness
, which is a 1 d.p. rounded percentage of assembly completeness calculated usingtotalMissing
fromnextcladeOutputJson
and the hardcoded length ofMN908947.3