README.md
pyproject.toml
simphyni/Snakefile copy.py
simphyni/Snakefile.py
simphyni/__init__.py
simphyni/simphyni_cli copy.py
simphyni/simphyni_cli.py
simphyni.egg-info/PKG-INFO
simphyni.egg-info/SOURCES.txt
simphyni.egg-info/dependency_links.txt
simphyni.egg-info/entry_points.txt
simphyni.egg-info/requires.txt
simphyni.egg-info/top_level.txt
simphyni/Simulation/PairStatistics.py
simphyni/Simulation/SimulationMethods.py
simphyni/Simulation/Utils.py
simphyni/Simulation/__init__.py
simphyni/Simulation/tree_simulator.py
simphyni/envs/simphyni.yaml
simphyni/scripts/GL_tab.py
simphyni/scripts/countgainloss_tab.py
simphyni/scripts/pastml.py
simphyni/scripts/reformat_csv.py
simphyni/scripts/reformat_tree.py
simphyni/scripts/runSimPhyNI.py