default cut-offs for mob_typer about mob-suite HOT 2 CLOSED

Hello Joseph, Thank you for the report, I will have the defaults of the parameters listed in the readme in a future update. I hadn't realized that the defaults weren't visible when you use --help. Here are the defaults from the arguments in the code. I am currently updating the MOB-suite with a pretty significant overhaul so I will add that to the documentation as part of that update ('--min_rep_evalue', type=str, required=False, help='Minimum evalue threshold for replicon blastn', default=0.00001) ('--min_mob_evalue', type=str, required=False, help='Minimum evalue threshold for relaxase tblastn', default=0.00001) ('--min_con_evalue', type=str, required=False, help='Minimum evalue threshold for contig blastn', default=0.00001) ('--min_ori_evalue', type=str, required=False, help='Minimum evalue threshold for oriT elements blastn', default=0.00001) ('--min_mpf_evalue', type=str, required=False, help='Minimum evalue threshold for mpf elements blastn', default=0.00001) ('--min_rep_ident', type=int, required=False, help='Minimum sequence identity for replicons', default=80) ('--min_mob_ident', type=int, required=False, help='Minimum sequence identity for relaxases', default=80) ('--min_ori_ident', type=int, required=False, help='Minimum sequence identity for oriT elements', default=90) ('--min_mpf_ident', type=int, required=False, help='Minimum sequence identity for mpf elements', default=80) ('--min_rep_cov', type=int, required=False, help='Minimum percentage coverage of replicon query by input assembly', default=80) ('--min_mob_cov', type=int, required=False, help='Minimum percentage coverage of relaxase query by input assembly', default=80) ('--min_ori_cov', type=int, required=False, help='Minimum percentage coverage of oriT', default=90) ('--min_mpf_cov', type=int, required=False, help='Minimum percentage coverage of mpf', default=80) ('--min_overlap', type=int, required=False, help='Minimum overlap of fragments', default=10)