============
hmmsearch.py
============

.. code-block:: bash

	usage: hmmsearch.py

	Filters domtblout generated from hmmsearch using provided cutoffs

	optional arguments:
	  -h, --help            show this help message and exit
	  --domtblout DOMTBLOUT
	                        Path to domtblout generated from hmmsearch -domtblout
	                        <domtblout> ... <hmmfile> <seqdb>
	  --cutoffs CUTOFFS     Path to cutoffs corresponding to hmmfile used with
	                        hmmsearch <hmmfile> <seqdb>
	  --seqdb SEQDB         Path to orfs seqdb used as input to hmmsearch ...
	                        <hmmfile> <seqdb>
	  --out OUT             Path to write table of markers passing provided
	                        cutoffs