MANIFEST.in
README.md
setup.cfg
setup.py
versioneer.py
aMGSIM/__init__.py
aMGSIM/__main__.py
aMGSIM/_version.py
aMGSIM.egg-info/PKG-INFO
aMGSIM.egg-info/SOURCES.txt
aMGSIM.egg-info/dependency_links.txt
aMGSIM.egg-info/entry_points.txt
aMGSIM.egg-info/requires.txt
aMGSIM.egg-info/top_level.txt
aMGSIM/Commands/AncientGenomes.py
aMGSIM/Commands/AncientReads.py
aMGSIM/Commands/CreateConfig.py
aMGSIM/Commands/Estimate.py
aMGSIM/Commands/MultiCov.py
aMGSIM/Commands/ProteinAnalysis.py
aMGSIM/Commands/__init__.py
aMGSIM/library/__init__.py
aMGSIM/library/cli.py
aMGSIM/library/defaults.py
aMGSIM/library/filterBAM_functions.py
aMGSIM/library/functions.py
aMGSIM/library/pa_functions.py
tests/__init__.py
tests/test_cli.py