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Update atpoc
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raufs authored Dec 2, 2023
1 parent ff6bbc0 commit 84b250d
Showing 1 changed file with 1 addition and 1 deletion.
2 changes: 1 addition & 1 deletion bin/atpoc
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Expand Up @@ -74,7 +74,7 @@ def create_parser():
parser.add_argument('-s', '--use_simple_blastp', action='store_true', help='Use a simple DIAMOND BLASTp search with no requirement for co-localization of hits.', required=False, default=False)
parser.add_argument('-si', '--simple_blastp_identity_cutoff', type=float, help='If simple BLASTp mode requested : cutoff for identity between query proteins and matches in target genomes [Default is 40.0].', required=False, default=40.0)
parser.add_argument('-sc', '--simple_blastp_coverage_cutoff', type=float, help='If simple BLASTp mode requested : cutoff for coverage between query proteins and matches in target genomes [Default is 70.0].', required=False, default=70.0)
parser.add_argument('-se', '--simple_blastp_evalue_cutoff', type=float, help='If simple BLASTp mode requested : cutoff for E-value between query proteins and matches in target genomes [Default is 1e-10].', required=False, default=1e-5)
parser.add_argument('-se', '--simple_blastp_evalue_cutoff', type=float, help='If simple BLASTp mode requested : cutoff for E-value between query proteins and matches in target genomes [Default is 1e-5].', required=False, default=1e-5)
parser.add_argument('-sm', '--simple_blastp_sensitivity_mode', help='Sensitivity mode for DIAMOND BLASTp. [Default is "very-sensititve"].', required=False, default="very-sensitive")
parser.add_argument('-o', '--outdir', help='Output directory.', required=True)
parser.add_argument('-c', '--cpus', type=int, help='The number of CPUs to use.', required=False, default=1)
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