LICENSE
MANIFEST.in
README.md
setup.py
metagenomix/__init__.py
metagenomix/_inputs.py
metagenomix/_io_utils.py
metagenomix/_metadata.py
metagenomix/creator.py
metagenomix/manager.py
metagenomix/metagenomix.py
metagenomix/monitoring.py
metagenomix.egg-info/PKG-INFO
metagenomix.egg-info/SOURCES.txt
metagenomix.egg-info/dependency_links.txt
metagenomix.egg-info/entry_points.txt
metagenomix.egg-info/requires.txt
metagenomix.egg-info/top_level.txt
metagenomix/core/__init__.py
metagenomix/core/commands.py
metagenomix/core/config.py
metagenomix/core/databases.py
metagenomix/core/jobs.py
metagenomix/core/output.py
metagenomix/core/parameters.py
metagenomix/core/pipeline.py
metagenomix/resources/run_params.yml
metagenomix/resources/scripts/fasta4shogun.py
metagenomix/resources/scripts/sam4shogun.py
metagenomix/resources/scripts/symmetrize_simka_matrix.py
metagenomix/resources/wol/batch_down.sh
metagenomix/resources/wol/genome_sizes.txt
metagenomix/resources/wol/lineages.txt
metagenomix/resources/wol/make_down_list.py
metagenomix/resources/wol/metadata.tsv
metagenomix/resources/wol/tree.nwk
metagenomix/scripts/__init__.py
metagenomix/scripts/_standalone_metagenomix.py
metagenomix/scripts/modules/__init__.py
metagenomix/scripts/modules/create.py
metagenomix/scripts/modules/manage.py
metagenomix/scripts/modules/monitor.py
metagenomix/tests/__init__.py
metagenomix/tests/test_config.py
metagenomix/tests/test_databases.py
metagenomix/tests/test_io_utils.py
metagenomix/tests/test_metadata.py
metagenomix/tests/test_pipeline.py
metagenomix/tools/__init__.py
metagenomix/tools/alignment.py
metagenomix/tools/annotation.py
metagenomix/tools/args.py
metagenomix/tools/assembly.py
metagenomix/tools/binning.py
metagenomix/tools/genomics.py
metagenomix/tools/metamarker.py
metagenomix/tools/phlans.py
metagenomix/tools/plasmids.py
metagenomix/tools/pooling.py
metagenomix/tools/postprocess.py
metagenomix/tools/preprocess.py
metagenomix/tools/profiling.py
metagenomix/tools/simka.py
metagenomix/tools/strains.py
metagenomix/tools/viruses.py