Abstract

The Mycobacteria Amplicon Sequencing Tool (https://github.com/guthrielab/MAST) is a modular Nextflow pipeline for antimicrobial resistance prediction and lineage classification of Mycobacterium tuberculosis from amplicon or whole-genome sequencing data sets. The workflow automates read processing, variant calling, and annotation to produce standardized, human-readable reports in DOCX and TSV format.