|
file | BurialEnergy.cc |
|
file | BurialEnergy.hh |
| energy term use for scoring predicted burial
|
|
file | BurialEnergyCreator.hh |
| Declaration for the class that connects BurialEnergy with the ScoringManager.
|
|
file | CartBondedParameters.hh |
|
file | CartesianBondedEnergy.cc |
| Harmonic bondangle/bondlength/torsion constraints.
|
|
file | CartesianBondedEnergy.fwd.hh |
|
file | CartesianBondedEnergy.hh |
|
file | CartesianBondedEnergyCreator.hh |
| Declaration for the class that connects CartesianBondedEnergy with the ScoringManager.
|
|
file | CenHBEnergy.cc |
| Smooth, differentiable version of centroid hbond term.
|
|
file | CenHBEnergy.fwd.hh |
| Smooth, differentiable version of centroid hbond term.
|
|
file | CenHBEnergy.hh |
| Smooth, differentiable version of centroid hbond term.
|
|
file | CenHBEnergyCreator.hh |
| Declaration for the class that connects CenHBEnergy with the ScoringManager.
|
|
file | CenPairEnergy.cc |
| Statistically derived rotamer pair potential class implementation.
|
|
file | CenPairEnergy.hh |
| Statistically derived rotamer pair potential class declaration.
|
|
file | CenPairEnergyCreator.hh |
|
file | CenRotEnvEnergy.cc |
| CenRot version of centroid env.
|
|
file | CenRotEnvEnergy.hh |
| CenRot version of centroid env.
|
|
file | CenRotEnvEnergyCreator.hh |
| CenRot version of centroid env.
|
|
file | CenRotPairEnergy.cc |
| CenRot version of cen pair.
|
|
file | CenRotPairEnergy.hh |
| CenRot version of cen pair.
|
|
file | CenRotPairEnergyCreator.hh |
| CenRot version of cen pair.
|
|
file | chainbreak_util.cc |
| Utility functions for scoring chainbreaks.
|
|
file | chainbreak_util.hh |
| Utility functions for scoring chainbreaks.
|
|
file | ChainbreakEnergy.cc |
| Method definitions for ChainbreakEnergyCreator and ChainbreakEnergy classes.
|
|
file | ChainbreakEnergy.fwd.hh |
| Etable energy method class declaration.
|
|
file | ChainbreakEnergy.hh |
| Method declarations and typedefs for ChainbreakEnergy.
|
|
file | ChainbreakEnergyCreator.hh |
| Declaration for the class that connects ChainbreakEnergy with the ScoringManager.
|
|
file | ChemicalShiftAnisotropyEnergy.cc |
| CSA energy - Orientation dependent chemical shift.
|
|
file | ChemicalShiftAnisotropyEnergy.fwd.hh |
|
file | ChemicalShiftAnisotropyEnergy.hh |
| CSP energy.
|
|
file | ChemicalShiftAnisotropyEnergyCreator.hh |
| Declaration for the class that connects ChemicalShiftAnisotropyEnergy with the ScoringManager.
|
|
file | ContactOrderEnergy.cc |
| calculates the contact order of a given conformation average sequence.
|
|
file | ContactOrderEnergy.hh |
| Statistically derived rotamer pair potential class declaration.
|
|
file | ContactOrderEnergyCreator.hh |
| Declaration for the class that connects ContactOrderEnergy with the ScoringManager.
|
|
file | ContextDependentLRTwoBodyEnergy.cc |
| Context-Dependent, Long-Range, Two-Body Energy class implementation.
|
|
file | ContextDependentLRTwoBodyEnergy.fwd.hh |
| Context-Dependent, Long-Range, Two-Body Energy Method class forward declaration.
|
|
file | ContextDependentLRTwoBodyEnergy.hh |
| Context-Dependent, Long-Range, Two-Body Energy class declaration.
|
|
file | ContextDependentOneBodyEnergy.cc |
|
file | ContextDependentOneBodyEnergy.fwd.hh |
|
file | ContextDependentOneBodyEnergy.hh |
|
file | ContextDependentTwoBodyEnergy.cc |
| Score function class.
|
|
file | ContextDependentTwoBodyEnergy.fwd.hh |
| Forward declaration for the Context-Dependent (ShortRange) Two-Body EnergyMethod base class.
|
|
file | ContextDependentTwoBodyEnergy.hh |
| Score function class.
|
|
file | ContextIndependentLRTwoBodyEnergy.cc |
| Context-Independent, Long-Range, Two-Body Energy class implementation.
|
|
file | ContextIndependentLRTwoBodyEnergy.fwd.hh |
| Context-Independent, Long-Range, Two-Body Energy Method class forward declaration.
|
|
file | ContextIndependentLRTwoBodyEnergy.hh |
| Context-Independent, Long-Range, Two-Body Energy class declaration.
|
|
file | ContextIndependentOneBodyEnergy.cc |
|
file | ContextIndependentOneBodyEnergy.fwd.hh |
|
file | ContextIndependentOneBodyEnergy.hh |
| Score function class.
|
|
file | ContextIndependentTwoBodyEnergy.cc |
| Short-ranged, context-independent, two-body energy class implementation.
|
|
file | ContextIndependentTwoBodyEnergy.fwd.hh |
|
file | ContextIndependentTwoBodyEnergy.hh |
| Short ranged, context-independent, two-body energy class declaration.
|
|
file | CustomAtomPairEnergy.cc |
| Simple EnergyMethod for calculating residue-residue constraints under some interaction cutoff.
|
|
file | CustomAtomPairEnergy.fwd.hh |
| Statistically derived rotamer pair potential class forward declaration.
|
|
file | CustomAtomPairEnergy.hh |
|
file | CustomAtomPairEnergyCreator.hh |
| Declaration for the class that connects CustomAtomPairEnergy with the ScoringManager.
|
|
file | D2H_SA_Energy.cc |
| sa energy function definition.
|
|
file | D2H_SA_Energy.hh |
| Statistically derived rotamer pair potential class declaration.
|
|
file | D2H_SA_EnergyCreator.hh |
| Declaration for the class that connects D2H_SA_Energy with the ScoringManager.
|
|
file | DipolarCouplingEnergy.cc |
| DC energy - Orientation dependent chemical shift.
|
|
file | DipolarCouplingEnergy.fwd.hh |
|
file | DipolarCouplingEnergy.hh |
| CSP energy.
|
|
file | DipolarCouplingEnergyCreator.hh |
| Declaration for the class that connects DipolarCouplingEnergy with the ScoringManager.
|
|
file | DirectReadoutEnergy.cc |
| Statistically derived DNA contact potential class implementation.
|
|
file | DirectReadoutEnergy.fwd.hh |
| Statistically derived DNA contact potential class declaration.
|
|
file | DirectReadoutEnergy.hh |
| Statistically derived DNA contact potential class declaration.
|
|
file | DirectReadoutEnergyCreator.hh |
| Declaration for the class that connects DirectReadoutEnergy with the ScoringManager.
|
|
file | DistanceChainbreakEnergy.cc |
| Atom pair energy functions.
|
|
file | DistanceChainbreakEnergy.fwd.hh |
| Etable energy method class declaration.
|
|
file | DistanceChainbreakEnergy.hh |
| Etable energy method class declaration.
|
|
file | DistanceChainbreakEnergyCreator.hh |
| Declaration for the class that connects DistanceChainbreakEnergy with the ScoringManager.
|
|
file | DNA_BaseEnergy.cc |
|
file | DNA_BaseEnergy.fwd.hh |
| Statistically derived rotamer pair potential class declaration.
|
|
file | DNA_BaseEnergy.hh |
| Statistically derived rotamer pair potential class declaration.
|
|
file | DNA_BaseEnergyCreator.hh |
| Declaration for the class that connects DNA_BaseEnergy with the ScoringManager.
|
|
file | EnergyMethod.cc |
| Base class for energy classes.
|
|
file | EnergyMethod.fwd.hh |
| Energy Method class forward declaration and EnergyMethodType enum definition.
|
|
file | EnergyMethod.hh |
| Base class for energy classes.
|
|
file | EnergyMethodCreator.fwd.hh |
| Base class for EnergyMethod factory-registration and creation classes.
|
|
file | EnergyMethodCreator.hh |
| Declaration of the base class for EnergyMethod factory registration and creation.
|
|
file | EnergyMethodOptions.cc |
| Score function class.
|
|
file | EnergyMethodOptions.fwd.hh |
| Score function class.
|
|
file | EnergyMethodOptions.hh |
| Score function class.
|
|
file | EnergyMethodRegistrator.hh |
| Declaration of the base class for EnergyMethod factory registration and creation.
|
|
file | EnvEnergy.cc |
| Statistically derived rotamer pair potential class implementation.
|
|
file | EnvEnergy.hh |
| EnergyMethod that evaluates env and cbeta energies.
|
|
file | EnvEnergyCreator.hh |
| Declaration for the class that connects EnvEnergy with the ScoringManager.
|
|
file | EnvSmoothEnergy.cc |
| Statistically derived rotamer pair potential class implementation.
|
|
file | EnvSmoothEnergy.fwd.hh |
| Statistically derived rotamer pair potential class declaration.
|
|
file | EnvSmoothEnergy.hh |
| Statistically derived fullatom environment potential class declaration.
|
|
file | EnvSmoothEnergyCreator.hh |
| Declaration for the class that connects EnvSmoothEnergy with the ScoringManager.
|
|
file | Fa_MbenvEnergy.cc |
|
file | Fa_MbenvEnergy.fwd.hh |
| Probability of observing an amino acid (NOT conditional on phi/psi), energy method forward declaration.
|
|
file | Fa_MbenvEnergy.hh |
|
file | Fa_MbenvEnergyCreator.hh |
| Declaration for the class that connects Fa_MbenvEnergy with the ScoringManager.
|
|
file | Fa_MbsolvEnergy.cc |
|
file | Fa_MbsolvEnergy.fwd.hh |
| LK Solvation using hemisphere culling class forward declaration.
|
|
file | Fa_MbsolvEnergy.hh |
| LK-type Membrane Solvation.
|
|
file | Fa_MbsolvEnergyCreator.hh |
| Declaration for the class that connects Fa_MbsolvEnergy with the ScoringManager.
|
|
file | FreeDOF_Energy.cc |
| FreeMoiety energy method implementation.
|
|
file | FreeDOF_Energy.fwd.hh |
| FreeMoiety energy method forward declaration.
|
|
file | FreeDOF_Energy.hh |
| Score function class.
|
|
file | FreeDOF_EnergyCreator.hh |
| Declaration for the class that connects FreeDOF_Energy with the ScoringManager.
|
|
file | FreeDOF_Options.cc |
|
file | FreeDOF_Options.fwd.hh |
|
file | FreeDOF_Options.hh |
|
file | GaussianOverlapEnergy.cc |
| Gaussian Overlap Energy.
|
|
file | GaussianOverlapEnergy.fwd.hh |
| golap
|
|
file | GaussianOverlapEnergy.hh |
| energy of overlaps
|
|
file | GaussianOverlapEnergyCreator.hh |
| Declaration for the class that connects GaussianOverlapEnergy with the ScoringManager.
|
|
file | GenBornEnergy.cc |
| Statistically derived rotamer pair potential class implementation.
|
|
file | GenBornEnergy.fwd.hh |
| Statistically derived rotamer pair potential class declaration.
|
|
file | GenBornEnergy.hh |
| Statistically derived rotamer pair potential class declaration.
|
|
file | GenBornEnergyCreator.hh |
| Declaration for the class that connects GenBornEnergy with the ScoringManager.
|
|
file | GoapEnergy.cc |
| C++ implementaion of GOAP(Generalized Orientation-dependent, All-atom statistical Potential) by Zhou H & Skolnick J, Biophys J 2011, 101(8):2043-52.
|
|
file | GoapEnergy.fwd.hh |
| C++ implementaion of GOAP(Generalized Orientation-dependent, All-atom statistical Potential) by Zhou H & Skolnick J, Biophys J 2011, 101(8):2043-52.
|
|
file | GoapEnergy.hh |
| C++ implementaion of GOAP(Generalized Orientation-dependent, All-atom statistical Potential) by Zhou H & Skolnick J, Biophys J 2011, 101(8):2043-52.
|
|
file | GoapEnergyCreator.hh |
|
file | HybridVDW_Energy.cc |
| Statistically derived rotamer pair potential class implementation.
|
|
file | HybridVDW_Energy.fwd.hh |
| Statistically derived rotamer pair potential class declaration.
|
|
file | HybridVDW_Energy.hh |
| Statistically derived rotamer pair potential class declaration.
|
|
file | HybridVDW_EnergyCreator.hh |
| Declaration for the class that connects HybridVDW_Energy with the ScoringManager.
|
|
file | IntermolEnergy.cc |
| Cost of bringing two chains together.
|
|
file | IntermolEnergy.hh |
| Radius of gyration score for METHODS, to match Rosetta++.
|
|
file | IntermolEnergyCreator.hh |
| Declaration for the class that connects IntermolEnergy with the ScoringManager.
|
|
file | LinearChainbreakEnergy.cc |
| Atom pair energy functions.
|
|
file | LinearChainbreakEnergy.fwd.hh |
| Etable energy method class declaration.
|
|
file | LinearChainbreakEnergy.hh |
| Etable energy method class declaration.
|
|
file | LinearChainbreakEnergyCreator.cc |
| LinearChainbreakEnergyCreator implementation.
|
|
file | LinearChainbreakEnergyCreator.hh |
| Declaration for the class that connects LinearChainbreakEnergy with the ScoringManager.
|
|
file | LK_BallEnergy.cc |
| Orientation dependent variant of the LK Solvation using.
|
|
file | LK_BallEnergy.fwd.hh |
| LK Solvation using hemisphere culling class declaration.
|
|
file | LK_BallEnergy.hh |
| Orientation dependent variant of the LK Solvation using.
|
|
file | LK_BallEnergyCreator.hh |
| Declaration for the class that connects LK_BallEnergy with the ScoringManager.
|
|
file | LK_BallInfo.cc |
| Orientation dependent variant of the LK Solvation using.
|
|
file | LK_BallInfo.hh |
| Orientation dependent variant of the LK Solvation using.
|
|
file | LK_hack.cc |
| LK Solvation using hemisphere culling class declaration.
|
|
file | LK_hack.fwd.hh |
| LK Solvation using hemisphere culling class forward declaration.
|
|
file | LK_hack.hh |
| LK Solvation using hemisphere culling class declaration.
|
|
file | LK_hackCreator.hh |
| Declaration for the class that connects LK_hack with the ScoringManager.
|
|
file | LK_PolarNonPolarEnergy.cc |
|
file | LK_PolarNonPolarEnergy.fwd.hh |
| LK Solvation using hemisphere culling class forward declaration.
|
|
file | LK_PolarNonPolarEnergy.hh |
| LK Solvation using hemisphere culling class declaration.
|
|
file | LK_PolarNonPolarEnergyCreator.hh |
| Declaration for the class that connects LK_PolarNonPolarEnergy with the ScoringManager.
|
|
file | LongRangeTwoBodyEnergy.cc |
| Long-Range, Two-Body Energy class implementation.
|
|
file | LongRangeTwoBodyEnergy.fwd.hh |
| Long range two body energy method class forward declaration.
|
|
file | LongRangeTwoBodyEnergy.hh |
| Long range two body energy method class declaration.
|
|
file | MembraneCbetaEnergy.cc |
| Statistically derived rotamer pair potential class implementation.
|
|
file | MembraneCbetaEnergy.fwd.hh |
| Statistically derived rotamer pair potential class declaration.
|
|
file | MembraneCbetaEnergy.hh |
| Membrane Environment Cbeta Energy.
|
|
file | MembraneCbetaEnergyCreator.hh |
| Declaration for the class that connects MembraneCbetaEnergy with the ScoringManager.
|
|
file | MembraneCenPairEnergy.cc |
| Statistically derived rotamer pair potential class implementation.
|
|
file | MembraneCenPairEnergy.fwd.hh |
| Statistically derived rotamer pair potential class declaration.
|
|
file | MembraneCenPairEnergy.hh |
| Membrane Pair Term.
|
|
file | MembraneCenPairEnergyCreator.hh |
| Declaration for the class that connects MembraneCenPairEnergy with the ScoringManager.
|
|
file | MembraneEnvEnergy.cc |
| Statistically derived rotamer pair potential class implementation.
|
|
file | MembraneEnvEnergy.fwd.hh |
| Statistically derived rotamer pair potential class declaration.
|
|
file | MembraneEnvEnergy.hh |
| Membrane Environment Cbeta Energy.
|
|
file | MembraneEnvEnergyCreator.hh |
| Declaration for the class that connects MembraneEnvEnergy with the ScoringManager.
|
|
file | MembraneEnvPenalties.cc |
| RMS Energy function. Used to optimize the RMSD between two structures.
|
|
file | MembraneEnvPenalties.fwd.hh |
| Statistically derived rotamer pair potential class declaration.
|
|
file | MembraneEnvPenalties.hh |
| RMS Energy function. Used to optimize the RMSD between two structures.
|
|
file | MembraneEnvPenaltiesCreator.hh |
| Declaration for the class that connects MembraneEnvPenalties with the ScoringManager.
|
|
file | MembraneEnvSmoothEnergy.cc |
| Statistically derived smooth membrane environment potential class implementation.
|
|
file | MembraneEnvSmoothEnergy.fwd.hh |
| Statistically derived smooth membrane environment potential class declaration.
|
|
file | MembraneEnvSmoothEnergy.hh |
| Statistically derived smooth membrane environment potential class declaration.
|
|
file | MembraneEnvSmoothEnergyCreator.hh |
| Declaration for the class that connects MembraneEnvSmoothEnergy with the ScoringManager.
|
|
file | MembraneLipo.cc |
| RMS Energy function. Used to optimize the RMSD between two structures.
|
|
file | MembraneLipo.fwd.hh |
| Statistically derived rotamer pair potential class declaration.
|
|
file | MembraneLipo.hh |
| RMS Energy function. Used to optimize the RMSD between two structures.
|
|
file | MembraneLipoCreator.hh |
| Declaration for the class that connects MembraneLipo with the ScoringManager.
|
|
file | Methods.hh |
| Energy Method enumeration.
|
|
file | MissingEnergy.cc |
| Cost of failing to close loops.
|
|
file | MissingEnergy.hh |
| Cost of failing to close loops.
|
|
file | MissingEnergyCreator.hh |
| Declaration for the class that connects MissingEnergy with the ScoringManager.
|
|
file | MMBondAngleEnergy.cc |
| molecular mechanics torsion energy
|
|
file | MMBondAngleEnergy.fwd.hh |
| molecular mechanics bond angle energy forward declaration
|
|
file | MMBondAngleEnergy.hh |
| molecular mechanics bond angle energy
|
|
file | MMBondAngleEnergyCreator.hh |
| Declaration for the class that connects MMBondAngleEnergy with the ScoringManager.
|
|
file | MMBondLengthEnergy.cc |
| Molecular mechanics bond length score class.
|
|
file | MMBondLengthEnergy.fwd.hh |
| Molecular mechanics bond length score class.
|
|
file | MMBondLengthEnergy.hh |
| Molecular mechanics bond length score class.
|
|
file | MMBondLengthEnergyCreator.hh |
| Molecular mechanics bond length score class.
|
|
file | MMLJEnergyInter.cc |
| molecular mechanics lj energy
|
|
file | MMLJEnergyInter.fwd.hh |
| molecular mechanics lj energy forward declaration
|
|
file | MMLJEnergyInter.hh |
| molecular mechanics lj energy
|
|
file | MMLJEnergyInterCreator.hh |
| Declaration for the class that connects MMLJEnergyInter with the ScoringManager.
|
|
file | MMLJEnergyIntra.cc |
| molecular mechanics lj energy
|
|
file | MMLJEnergyIntra.fwd.hh |
| molecular mechanics lj energy forward declaration
|
|
file | MMLJEnergyIntra.hh |
| molecular mechanics lj energy
|
|
file | MMLJEnergyIntraCreator.hh |
| Declaration for the class that connects MMLJEnergyIntra with the ScoringManager.
|
|
file | MMTorsionEnergy.cc |
| molecular mechanics torsion energy
|
|
file | MMTorsionEnergy.fwd.hh |
| molecular mechanics torsion energy forward declaration
|
|
file | MMTorsionEnergy.hh |
| molecular mechanics torsion energy
|
|
file | MMTorsionEnergyCreator.hh |
| Declaration for the class that connects MMTorsionEnergy with the ScoringManager.
|
|
file | NMerPSSMEnergy.cc |
| PSSMerence energy method implementation.
|
|
file | NMerPSSMEnergy.fwd.hh |
| PSSMerence energy method forward declaration.
|
|
file | NMerPSSMEnergy.hh |
| PSSM energy method declaration.
|
|
file | NMerPSSMEnergyCreator.hh |
| Declaration for the class that connects NMerPSSMEnergy with the ScoringManager.
|
|
file | NMerRefEnergy.cc |
| Reference energy method implementation.
|
|
file | NMerRefEnergy.fwd.hh |
| Reference energy method forward declaration.
|
|
file | NMerRefEnergy.hh |
| Reference energy method declaration.
|
|
file | NMerRefEnergyCreator.hh |
| Declaration for the class that connects NMerRefEnergy with the ScoringManager.
|
|
file | NMerSVMEnergy.cc |
| SVMerence energy method implementation.
|
|
file | NMerSVMEnergy.fwd.hh |
| SVMerence energy method forward declaration.
|
|
file | NMerSVMEnergy.hh |
| SVM energy method declaration.
|
|
file | NMerSVMEnergyCreator.hh |
| Declaration for the class that connects NMerSVMEnergy with the ScoringManager.
|
|
file | OmegaTetherEnergy.cc |
| OmegaTether energy method class implementation.
|
|
file | OmegaTetherEnergy.fwd.hh |
| OmegaTether energy method class forward declaration.
|
|
file | OmegaTetherEnergy.hh |
| OmegaTether energy method class declaration.
|
|
file | OmegaTetherEnergyCreator.hh |
| Declaration for the class that connects OmegaTetherEnergy with the ScoringManager.
|
|
file | OneBodyEnergy.cc |
|
file | OneBodyEnergy.fwd.hh |
|
file | OneBodyEnergy.hh |
|
file | OtherPoseEnergy.cc |
| Way to handle scoring of a collection of poses, allowing shift of focus between poses.
|
|
file | OtherPoseEnergy.fwd.hh |
|
file | OtherPoseEnergy.hh |
|
file | OtherPoseEnergyCreator.hh |
| Declaration for the class that connects OtherPoseEnergy with the ScoringManager.
|
|
file | P_AA_Energy.cc |
| Probability of observing an amino acid (NOT conditional on phi/psi), energy method implementation.
|
|
file | P_AA_Energy.fwd.hh |
| Probability of observing an amino acid (NOT conditional on phi/psi), energy method forward declaration.
|
|
file | P_AA_Energy.hh |
| Probability of observing an amino acid (NOT conditional on phi/psi), energy method declaration.
|
|
file | P_AA_EnergyCreator.hh |
| Declaration for the class that connects P_AA_Energy with the ScoringManager.
|
|
file | P_AA_pp_Energy.cc |
| Probability of observing an amino acid, given its phi/psi energy method declaration.
|
|
file | P_AA_pp_Energy.fwd.hh |
| Probability of observing an amino acid, given its phi/psi energy method forward declaration.
|
|
file | P_AA_pp_Energy.hh |
| Probability of observing an amino acid, given its phi/psi energy method declaration.
|
|
file | P_AA_pp_EnergyCreator.hh |
| Declaration for the class that connects P_AA_pp_Energy with the ScoringManager.
|
|
file | PackStatEnergy.cc |
| Radius of gyration energy function definition. Returns -1 * RG for a given Pose.
|
|
file | PackStatEnergy.hh |
|
file | PackStatEnergyCreator.hh |
| Declaration for the class that connects PackStatEnergy with the ScoringManager.
|
|
file | PairEnergy.cc |
| Statistically derived rotamer pair potential class implementation.
|
|
file | PairEnergy.fwd.hh |
| Statistically derived rotamer pair potential class forward declaration.
|
|
file | PairEnergy.hh |
| Statistically derived rotamer pair potential class declaration.
|
|
file | PairEnergyCreator.hh |
| Declaration for the class that connects PairEnergy with the ScoringManager.
|
|
file | PeptideBondEnergy.cc |
|
file | PeptideBondEnergy.fwd.hh |
| Etable energy method class declaration.
|
|
file | PeptideBondEnergy.hh |
| scoring method that defines ideal bond lengths between carbonyl carbon of residue N and nitrogen of residue N+1.
|
|
file | PeptideBondEnergyCreator.hh |
| Declaration for the class that connects PeptideBondEnergy with the ScoringManager.
|
|
file | pHEnergy.cc |
| Energy due to ionization state of the residue at a particular pH (see pHEnergy.hh for a detailed description)
|
|
file | pHEnergy.fwd.hh |
| pH energy forward declaration
|
|
file | pHEnergy.hh |
| pH Score (kT = 0.59 at 298 K) based on the chemical potential of the protonated/deprotonated residues. It indirectly contributes to a change in rotamer probabilities of protonated/deprotonated residues in the Dunbrack energy depending on the value of pH
|
|
file | pHEnergyCreator.hh |
| Declaration for the class that connects pHEnergy with the ScoringManager.
|
|
file | PoissonBoltzmannEnergy.cc |
| Ramachandran energy method class implementation.
|
|
file | PoissonBoltzmannEnergy.fwd.hh |
| Ramachandran energy method class forward declaration.
|
|
file | PoissonBoltzmannEnergy.hh |
| Membrane Environment Cbeta Energy.
|
|
file | PoissonBoltzmannEnergyCreator.hh |
| Declaration for the class that connects PB_elec energy with the ScoringManager.
|
|
file | ProClosureEnergy.cc |
| Proline ring closure energy method class implementation.
|
|
file | ProClosureEnergy.fwd.hh |
| Proline ring closure energy method class forward declaration.
|
|
file | ProClosureEnergy.hh |
| Proline ring closure energy method class declaration.
|
|
file | ProClosureEnergyCreator.hh |
| Declaration for the class that connects ProClosureEnergy with the ScoringManager.
|
|
file | ProQ_Energy.cc |
| ProQ energy function definition.
|
|
file | ProQ_Energy.hh |
| Statistically derived rotamer pair potential class declaration.
|
|
file | ProQ_EnergyCreator.hh |
| Declaration for the class that connects ProQ_Energy with the ScoringManager.
|
|
file | PyEnergy.hh |
| Various Energy classes for subclassing in PyRosetta.
|
|
file | PyEnergyMethodRegisterer.hh |
| EnergyMethod factory registration and creation in PyRosetta.
|
|
file | Rama2BOffsetEnergy.cc |
|
file | Rama2BOffsetEnergy.fwd.hh |
|
file | Rama2BOffsetEnergy.hh |
|
file | Rama2BOffsetEnergyCreator.hh |
| Declaration for the class that connects Rama2BOffsetEnergy with the ScoringManager.
|
|
file | RamachandranEnergy.cc |
| Ramachandran energy method class implementation.
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file | RamachandranEnergy.fwd.hh |
| Ramachandran energy method class forward declaration.
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file | RamachandranEnergy.hh |
| Ramachandran energy method class declaration.
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file | RamachandranEnergy2B.cc |
| Ramachandran energy method class implementation.
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file | RamachandranEnergy2B.fwd.hh |
| Ramachandran energy method class forward declaration.
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file | RamachandranEnergy2B.hh |
| Ramachandran energy method class declaration.
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file | RamachandranEnergy2BCreator.hh |
| Declaration for the class that connects RamachandranEnergy2B with the ScoringManager.
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file | RamachandranEnergyCreator.hh |
| Declaration for the class that connects RamachandranEnergy with the ScoringManager.
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file | ReferenceEnergy.cc |
| Reference energy method implementation.
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file | ReferenceEnergy.fwd.hh |
| Reference energy method forward declaration.
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file | ReferenceEnergy.hh |
| Reference energy method declaration.
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file | ReferenceEnergyCreator.hh |
| Declaration for the class that connects ReferenceEnergy with the ScoringManager.
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file | ReferenceEnergyNoncanonical.cc |
| Reference energy method implementation.
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file | ReferenceEnergyNoncanonical.fwd.hh |
| Reference energy method forward declaration.
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file | ReferenceEnergyNoncanonical.hh |
| Reference energy method declaration.
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file | ReferenceEnergyNoncanonicalCreator.hh |
| Declaration for the class that connects ReferenceEnergyNoncanonical with the ScoringManager.
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file | ResidualDipolarCouplingEnergy.cc |
| RDC energy - comparing experimental RDC values to calculated values.
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file | ResidualDipolarCouplingEnergy.fwd.hh |
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file | ResidualDipolarCouplingEnergy.hh |
| RDC energy - comparing experimental RDC values to calculated values.
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file | ResidualDipolarCouplingEnergy_Rohl.cc |
| RDC energy - comparing experimental RDC values to calculated values.
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file | ResidualDipolarCouplingEnergy_Rohl.hh |
| RDC energy - comparing experimental RDC values to calculated values.
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file | ResidualDipolarCouplingEnergy_RohlCreator.hh |
| Declaration for the class that connects ResidualDipolarCouplingEnergy_Rohl with the ScoringManager.
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file | ResidualDipolarCouplingEnergyCreator.hh |
| Declaration for the class that connects ResidualDipolarCouplingEnergy with the ScoringManager.
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file | RG_Energy_Fast.cc |
| Radius of gyration energy function definition.
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file | RG_Energy_Fast.hh |
| Statistically derived rotamer pair potential class declaration.
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file | RG_Energy_FastCreator.hh |
| Declaration for the class that connects RG_Energy_Fast with the ScoringManager.
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file | RG_LocalEnergy.cc |
| Radius of gyration for local region.
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file | RG_LocalEnergy.hh |
| only calculates RG the length of the repeat. Uses code from RG_Energy_fast
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file | RG_LocalEnergyCreator.hh |
| Declaration for the class that connects RG_Energy_Fast with the ScoringManager.
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file | RMS_Energy.cc |
| RMS Energy function. Used to optimize the RMSD between two structures.
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file | RMS_Energy.hh |
| RMS Energy function. Used to optimize the RMSD between two structures.
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file | RMS_EnergyCreator.hh |
| Declaration for the class that connects RMS_Energy with the ScoringManager.
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file | SA_Energy.cc |
| sa energy function definition.
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file | SA_Energy.hh |
| Statistically derived rotamer pair potential class declaration.
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file | SA_EnergyCreator.hh |
| Declaration for the class that connects SA_Energy with the ScoringManager.
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file | SecondaryStructureEnergy.cc |
| Statistically derived rotamer pair potential class implementation.
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file | SecondaryStructureEnergy.fwd.hh |
| Statistically derived rotamer pair potential class declaration.
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file | SecondaryStructureEnergy.hh |
| Statistically derived rotamer pair potential class declaration.
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file | SecondaryStructureEnergyCreator.hh |
| Declaration for the class that connects SecondaryStructureEnergy with the ScoringManager.
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file | SequenceDependentRefEnergy.cc |
| Reference energy method implementation.
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file | SequenceDependentRefEnergy.fwd.hh |
| Reference energy method forward declaration.
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file | SequenceDependentRefEnergy.hh |
| Reference energy method declaration.
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file | SequenceDependentRefEnergyCreator.hh |
| Declaration for the class that connects SequenceDependentRefEnergy with the ScoringManager.
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file | ShortRangeTwoBodyEnergy.cc |
| Short-Range, Two-Body Energy Method base class implementation.
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file | ShortRangeTwoBodyEnergy.fwd.hh |
| Short Range Two Body Energy Method base class forward declaration.
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file | ShortRangeTwoBodyEnergy.hh |
| Short Range Two Body Energy Method base class declaration.
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file | SmoothCenPairEnergy.cc |
| Smooth, differentiable, version of cenpair.
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file | SmoothCenPairEnergy.hh |
| Smooth, differentiable, version of cenpair.
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file | SmoothCenPairEnergyCreator.hh |
| Smooth, differentiable, version of cenpair.
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file | SmoothEnvEnergy.cc |
| Smooth, differentiable, version of centroid env.
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file | SmoothEnvEnergy.hh |
| Smooth, differentiable, version of centroid env.
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file | SmoothEnvEnergyCreator.hh |
| Smooth, differentiable, version of centroid env.
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file | SuckerEnergy.cc |
| Statistically derived rotamer pair potential class implementation.
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file | SuckerEnergy.fwd.hh |
| Statistically derived rotamer pair potential class forward declaration.
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file | SuckerEnergy.hh |
| energy attracting atoms to sucker atoms
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file | SuckerEnergyCreator.hh |
| Declaration for the class that connects SuckerEnergy with the ScoringManager.
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file | SymmetricLigandEnergy.cc |
| Dunbrack energy method implementation.
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file | SymmetricLigandEnergy.fwd.hh |
| Dunbrack energy method forward declaration.
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file | SymmetricLigandEnergy.hh |
| score for implicit ligand interactions from symmetric geometry
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file | SymmetricLigandEnergyCreator.hh |
| Declaration for the class that connects SymmetricLigandEnergy with the ScoringManager.
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file | TwoBodyEnergy.cc |
| Two Body Energy Method base class implementation.
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file | TwoBodyEnergy.fwd.hh |
| Two Body Energy Method base class forward declaration.
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file | TwoBodyEnergy.hh |
| Two Body Energy Method base class declaration.
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file | UnfoldedStateEnergy.cc |
| Unfolded state energy method implementation; energies based on eneriges of residues in fragments.
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file | UnfoldedStateEnergy.fwd.hh |
| Unfolded state energy method, forward declaration.
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file | UnfoldedStateEnergy.hh |
| Unfolded state energy declaration header file.
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file | UnfoldedStateEnergyCreator.hh |
| Declaration for the class that connects UnfoldedStateEnergy with the ScoringManager.
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file | util.cc |
| utility methods for scoring.
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file | util.hh |
| utility methods for scoring.
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file | WaterAdductHBondEnergy.cc |
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file | WaterAdductHBondEnergy.fwd.hh |
| Energy potential for water mediated hydrogen bonds involving adduct-placed water molecules.
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file | WaterAdductHBondEnergy.hh |
| Energy potential for water mediated hydrogen bonds involving adduct-placed water molecules.
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file | WaterAdductHBondEnergyCreator.hh |
| Declaration for the class that connects WaterAdductHBondEnergy with the ScoringManager.
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file | WaterAdductIntraEnergy.cc |
| Energetic offset/cost for placing a water adduct on an amino or nucleic acid.
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file | WaterAdductIntraEnergy.fwd.hh |
| Energetic offset/cost for placing a water adduct on an amino or nucleic acid.
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file | WaterAdductIntraEnergy.hh |
| Energetic offset/cost for placing a water adduct on an amino or nucleic acid.
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file | WaterAdductIntraEnergyCreator.hh |
| Declaration for the class that connects WaterAdductIntraEnergy with the ScoringManager.
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file | WholeStructureEnergy.cc |
| Implementation of the EnergyMethod that applies to a whole structure and not on a residue-by-residue basis.
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file | WholeStructureEnergy.fwd.hh |
| EnergyMethod that applies to a whole structure and not on a residue-by-residue basis.
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file | WholeStructureEnergy.hh |
| EnergyMethod that applies to a whole structure and not on a residue-by-residue basis.
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file | YHHPlanarityEnergy.cc |
| Term for chi3 on tyrosine residues to prefer the hydrogen lie in the plane of the ring.
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file | YHHPlanarityEnergy.fwd.hh |
| Probability of observing an amino acid, given its phi/psi energy method forward declaration.
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file | YHHPlanarityEnergy.hh |
| Probability of observing an amino acid, given its phi/psi energy method declaration.
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file | YHHPlanarityEnergyCreator.hh |
| Declaration for the class that connects P_AA_pp_Energy with the ScoringManager.
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