=============
metagenome.py
=============

.. code-block:: bash

	usage: metagenome.py

	This script handles filtering by length and can calculate various metagenome
	statistics.

	optional arguments:
	  -h, --help            show this help message and exit
	  --assembly filepath   Path to metagenome assembly (nucleotide fasta).
	                        (default: None)
	  --output-fasta filepath
	                        Path to output length-filtered assembly fasta file.
	                        (default: None)
	  --output-stats filepath
	                        Path to output assembly stats table. (default: None)
	  --output-gc-content filepath
	                        Path to output assembly contigs' GC content and
	                        length. (default: None)
	  --cutoff int          Cutoff to apply to length filter (default: 3000)
	  --force               Overwrite existing files (default: False)
	  --verbose             Log more information to terminal. (default: False)