of target length.""",
)
pipe.add_arg(
"--min_nodes",
type=int,
default=4,
help="""
Minimum number of nodes to be retained as a homolgous gene cluster.""",
)
pipe.add_path_arg(
"--genesets",
nargs="+",
default=None,
help="""
Concatenate the specified amino acid FASTAs and use as the reference for
a blastx or blastp comparison, instead of performing an all-to-all
comparison. FASTA headers must start with a non-digit.""",
)
pipe.add_path_arg(
"--blast_hits",
default=None,
help="""
Use a pre-computed blast alignment when starting from the parse_edges
stage.""",
)
pipe.add_arg(
"--mcl_inflation",
