usage: vote.py
Filter metagenome by taxonomy.
optional arguments:
-h, --help show this help message and exit
--votes filepath Input path to voted taxids table. should contain (at
least) 'contig' and 'taxid' columns (default: None)
--assembly filepath Path to metagenome assembly (nucleotide fasta).
(default: None)
--output dirpath Output directory to write specified canonical ranks
fasta files and taxon-binning results table (default:
None)
--prefix str prefix to use for each file written e.g.
`prefix`.taxonomy.tsv. Note: Do not use a directory
prefix. (default: None)
--split-rank-and-write {superkingdom,phylum,class,order,family,genus,species}
If specified, will split contigs by provided
canonical-rank column then write to `output` directory
(default: None)
--dbdir dirpath Path to taxonomy database directory. (default:
NCBI_DIR)
--dbtype {ncbi,gtdb} Taxonomy database to use (default: ncbi)