Update ivar consensus calling mpileup command

connor-lab / ncov2019-artic-nf

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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Update ivar consensus calling mpileup command #54

Closed m-bull closed 4 years ago

m-bull commented 4 years ago

Updated ivar documentation to adds -aa to samtools mpileup here: https://github.com/andersen-lab/ivar/blob/master/docs/MANUAL.md. cc @jts