README.md
perses/__init__.py
perses.egg-info/PKG-INFO
perses.egg-info/SOURCES.txt
perses.egg-info/dependency_links.txt
perses.egg-info/entry_points.txt
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perses/../examples/README.md
perses/../examples/relative_hydration.py
perses/../examples/abl-src-selectivity/selectivity.py
perses/../examples/cdk2-example/CDK2_fixed_nohet.pdb
perses/../examples/cdk2-example/CDK2_ligands.mol2
perses/../examples/cdk2-example/README.md
perses/../examples/cdk2-example/cdk2_setup.yaml
perses/../examples/dualtopology/3_aminos.py
perses/../examples/dualtopology/all_aminos.py
perses/../examples/dualtopology/amino_acid_example.py
perses/../examples/host-guest/README.md
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perses/../examples/rjmc/README.md
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perses/analysis/__init__.py
perses/analysis/analysis.py
perses/annihilation/__init__.py
perses/annihilation/ncmc_switching.py
perses/annihilation/new_relative.py
perses/annihilation/relative.py
perses/bias/__init__.py
perses/bias/bias_engine.py
perses/data/181L.pdb
perses/data/1sb0.pdb
perses/data/L99A-binders.txt
perses/data/L99A-non-binders.txt
perses/data/T4-inhibitors.xml
perses/data/amber99sbildn-valence-only.xml
perses/data/clinical-kinase-inhibitors.csv
perses/data/gaff-valence-only.xml
perses/data/gaff.xml
perses/data/kinase-inhibitors.xml
perses/data/abl-imatinib/README.md
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perses/data/abl-imatinib/receptor.pdb
perses/data/abl-src/abl-imatinib.pdb
perses/data/abl-src/src-imatinib.pdb
perses/data/cdk2-example/CDK2_fixed_nohet.pdb
perses/data/cdk2-example/CDK2_ligands.mol2
perses/data/cdk2-example/README.md
perses/data/cdk2-example/cdk2_setup.yaml
perses/data/constant-pH/abl-imatinib/Imatinib-epik-charged.ffxml
perses/data/constant-pH/abl-imatinib/Imatinib-epik-charged.mol2
perses/data/constant-pH/abl-imatinib/Imatinib-state-penalties.out
perses/data/constant-pH/abl-imatinib/README.md
perses/data/constant-pH/abl-imatinib/complex.pdb
perses/data/constant-pH/abl-imatinib/generate-ligand-ffxml.py
perses/data/constant-pH/abl-imatinib/inhibitor.pdb
perses/data/constant-pH/abl-imatinib/receptor.pdb
perses/data/constant-pH/imidazole/README.md
perses/data/constant-pH/imidazole/convert.py
perses/data/constant-pH/imidazole/generate-protomers-from-smiles.py
perses/data/constant-pH/imidazole/imidazole.pdb
perses/data/constant-pH/imidazole/imidazole/imidazole-epik-charged.mol2
perses/data/constant-pH/imidazole/imidazole/imidazole-epik-charged.pdb
perses/data/constant-pH/imidazole/imidazole/imidazole-epik.log
perses/data/constant-pH/imidazole/imidazole/imidazole-epik.mae
perses/data/constant-pH/imidazole/imidazole/imidazole-epik.mol2
perses/data/constant-pH/imidazole/imidazole/imidazole-epik.sdf
perses/data/constant-pH/imidazole/imidazole/imidazole-input.mol2
perses/data/constant-pH/imidazole/imidazole/imidazole-state-penalties.out
perses/data/schrodinger-jacs-datasets/Bace_ligands.sdf
perses/data/schrodinger-jacs-datasets/CDK2_ligands.sdf
perses/data/schrodinger-jacs-datasets/Jnk1_ligands.sdf
perses/data/schrodinger-jacs-datasets/MCL1_ligands.sdf
perses/data/schrodinger-jacs-datasets/PTP1B_ligands.sdf
perses/data/schrodinger-jacs-datasets/README.md
perses/data/schrodinger-jacs-datasets/Thrombin_ligands.sdf
perses/data/schrodinger-jacs-datasets/Tyk2_ligands.sdf
perses/data/schrodinger-jacs-datasets/p38_ligands.sdf
perses/dispersed/__init__.py
perses/dispersed/feptasks.py
perses/dispersed/relative_setup.py
perses/rjmc/__init__.py
perses/rjmc/coordinate_numba.py
perses/rjmc/coordinate_tools.py
perses/rjmc/geometry.py
perses/rjmc/topology_proposal.py
perses/samplers/__init__.py
perses/samplers/samplers.py
perses/samplers/thermodynamics.py
perses/storage/__init__.py
perses/storage/movie.py
perses/storage/storage.py
perses/tests/__init__.py
perses/tests/benchmark.py
perses/tests/test_analysis.py
perses/tests/test_elimination.py
perses/tests/test_geometry_engine.py
perses/tests/test_hybrid_builder.py
perses/tests/test_ncmc_integrator.py
perses/tests/test_relative_setup.py
perses/tests/test_samplers.py
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