LICENSE
MANIFEST.in
README.md
setup.py
mdmcleaner/__init__.py
mdmcleaner/_version.py
mdmcleaner/add_cog_thresholds.py
mdmcleaner/blacklist.list
mdmcleaner/blasthandler.py
mdmcleaner/check_dependencies.py
mdmcleaner/clean.py
mdmcleaner/getdb.py
mdmcleaner/getmarkers.py
mdmcleaner/lca.py
mdmcleaner/mdmcleaner.config
mdmcleaner/mdmcleaner.py
mdmcleaner/misc.py
mdmcleaner/read_gtdb_taxonomy.py
mdmcleaner/read_ncbi_taxonomy.py
mdmcleaner/reporting.py
mdmcleaner/review_refdbcontams.py
mdmcleaner.egg-info/PKG-INFO
mdmcleaner.egg-info/SOURCES.txt
mdmcleaner.egg-info/dependency_links.txt
mdmcleaner.egg-info/entry_points.txt
mdmcleaner.egg-info/requires.txt
mdmcleaner.egg-info/top_level.txt
mdmcleaner/hmms/cutofftable_combined.tsv
mdmcleaner/hmms/gtdbtk_tigrmarkerlist_arch.tsv.csv
mdmcleaner/hmms/gtdbtk_tigrmarkerlist_bact.tsv.csv
mdmcleaner/hmms/gtdbtk_tigrmarkerlist_prok.tsv.csv
mdmcleaner/hmms/arch/arch_pfam.hmm
mdmcleaner/hmms/arch/arch_tigr.hmm
mdmcleaner/hmms/bact/bact_pfam.hmm
mdmcleaner/hmms/bact/bact_tigr.hmm
mdmcleaner/hmms/prok/prok_cog.hmm
mdmcleaner/hmms/prok/prok_pfam.hmm
mdmcleaner/hmms/prok/prok_tigr.hmm