The LoRA pipeline is a complete automated workflow for long metagenomic reads processing, which runs through steps for host removal, long read assembly, microbial taxonomic content classifications, feature predictions, annotations, and abundance scoring, as well as (if elected) functional inference, community stats and visualizations. The pipeline is also equipped with user electable databases specific for host, taxonomic or functional inference, as well as options for antimicrobial resistance (AMR) gene finding, scaffold binning and quality assessment of metagenome assembled genomes (MAGs).
