2.2.5.2 Taxonomy inference
Sequence taxonomy is inferred using DIAMOND blastx or blastp via the user-specified protein database and the option parameters specified in the vAMPirus configuration file. The taxonomy process produces several files that are stored within a DIAMOND specific directory: 1. Unmodified DIAMOND output file, 2. fasta file of taxonomy assignments within the sequence headers, and 3. Results summary files (phyloseq taxonomy file, tab-separated summary file, and summary table of the abundance of specific hits). Taxonomy inference results are visualized in the Analyze report as a donut plot.