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openfe.setup
atom_mapping
perses_scorers
default_perses_scorer
lomap_scorers
DEFAULT_ANS_DIFFICULTY
atomic_number_score
default_lomap_score
ecr_score
heterocycles_score
hybridization_score
mcsr_score
mncar_score
sulfonamides_score
tmcsr_score
transmuting_methyl_into_ring_score
transmuting_ring_sizes_score
LigandAtomMapping
LigandAtomMapper
LomapAtomMapper
PersesAtomMapper
system
ChemicalSystem
Component
ProteinComponent
SmallMoleculeComponent
SolventComponent
ligand_network_planning
generate_maximal_network
generate_minimal_redundant_network
generate_minimal_spanning_network
generate_network_from_indices
generate_network_from_names
generate_radial_network
load_fepplus_network
load_orion_network
alchemical_network_planner
abstract_alchemical_network_planner
AbstractAlchemicalNetworkPlanner
relative_alchemical_network_planner
PROTOCOL_GENERATOR
RBFEAlchemicalNetworkPlanner
RHFEAlchemicalNetworkPlanner
RelativeAlchemicalNetworkPlanner
LigandNetwork
Transformation
AlchemicalNetwork
openfe.orchestration
execute_DAG
openfe.analysis
plotting
plot_convergence
plot_lambda_transition_matrix
plot_replica_timeseries
openfe.protocols
settings
Settings
SettingsBaseModel
SystemSettings
SolvationSettings
AlchemicalSamplerSettings
OpenMMEngineSettings
IntegratorSettings
SimulationSettings
ThermoSettings
OpenMMSystemGeneratorFFSettings
AlchemicalSettings
openmm_rfe
RelativeHybridTopologyProtocolSettings
RelativeHybridTopologyProtocol
RelativeHybridTopologyProtocolResult
RelativeHybridTopologyProtocolUnit
Protocol
ProtocolDAG
ProtocolUnit
ProtocolUnitResult
ProtocolUnitFailure
ProtocolDAGResult
ProtocolResult
openfe.storage
metadatastore
JSONMetadataStore
MetadataStore
PerFileJSONMetadataStore
resultclient
CloneResult
ExtensionResult
ResultClient
TransformationResult
resultserver
ResultServer
openfe.utils
custom_typing
OEMol
requires_package
without_oechem_backend
log_system_probe
GufeTokenizable
plan-rhfe-network
plan-rbfe-network
quickrun
gather
Classes
Type variable.