Srst2

• csv_to_gene_db(1) generate the appropriate headers for srst2
• get_all_vfdb(1) automate generation of all the VFDB gene databases for use with srst2
• get_genus_vfdb(1) automate generation of a VFDB gene database for a specified genus for use with srst2
• getmlst(1) Download MLST datasets by speciesfrom pubmlst.org.
• slurm_srst2(1) running srst2 against multiple read sets
• srst2(1) Short Read Sequence Typer
• VFDB_cdhit_to_csv(1) Parse cdhit results
• VFDBgenus(1) Extract virulence genes by genus from the VFDB database