|
| file | APBSWrapper.cc |
| |
| file | APBSWrapper.fwd.hh |
| |
| file | APBSWrapper.hh |
| |
| file | AtomVDW.cc |
| |
| file | AtomVDW.fwd.hh |
| |
| file | AtomVDW.hh |
| |
| file | CenHBPotential.cc |
| |
| file | CenHBPotential.fwd.hh |
| |
| file | CenHBPotential.hh |
| |
| file | CenRotEnvPairPotential.cc |
| |
| file | CenRotEnvPairPotential.fwd.hh |
| |
| file | CenRotEnvPairPotential.hh |
| |
| file | ChemicalShiftAnisotropy.cc |
| | Uses NMR CSA for scoring (Bertram R et al J of Magn Reson 147, 9-16)
|
| |
| file | ChemicalShiftAnisotropy.fwd.hh |
| |
| file | ChemicalShiftAnisotropy.hh |
| | Uses NMR CSA for scoring.
|
| |
| file | constants.hh |
| | core::scoring package constants
|
| |
| file | ContextGraph.cc |
| | Context graph class.
|
| |
| file | ContextGraph.fwd.hh |
| | Context graph class forward declaration.
|
| |
| file | ContextGraph.hh |
| | Context graph class declaration.
|
| |
| file | ContextGraphFactory.cc |
| | Context graph class factory implementation.
|
| |
| file | ContextGraphFactory.fwd.hh |
| | Context graph class factory forward declaration.
|
| |
| file | ContextGraphFactory.hh |
| | Context graph factory class declaration.
|
| |
| file | ContextGraphTypes.hh |
| |
| file | DenseEnergyContainer.cc |
| | A container for storing all-against-all energies as the upper triangle of a matrix.
|
| |
| file | DenseEnergyContainer.fwd.hh |
| |
| file | DenseEnergyContainer.hh |
| | A container for storing all-against-all energies as the upper triangle of a matrix.
|
| |
| file | DerivVectorPair.cc |
| |
| file | DerivVectorPair.fwd.hh |
| | Class for storing a pair of derivative vectors, f1 and f2, used in our internal-geometry minimization algorithm.
|
| |
| file | DerivVectorPair.hh |
| | Serialization routines for the DerivVectorPair class.
|
| |
| file | DipolarCoupling.cc |
| | Uses NMR DC for scoring (Bertram R et al J of Magn Reson 147, 9-16)
|
| |
| file | DipolarCoupling.fwd.hh |
| |
| file | DipolarCoupling.hh |
| | Uses NMR DC for scoring.
|
| |
| file | DockingScoreFunction.cc |
| |
| file | DockingScoreFunction.fwd.hh |
| | core::scoring::DockingScoreFunction forward declarations
|
| |
| file | DockingScoreFunction.hh |
| |
| file | Energies.cc |
| | Energies class to store cached energies and track the residue neighbor relationships.
|
| |
| file | Energies.fwd.hh |
| | Energies forward declarations header.
|
| |
| file | Energies.hh |
| | Energies class.
|
| |
| file | EnergiesCacheableDataType.hh |
| | enum for the DataCache within the Energies class
|
| |
| file | EnergyGraph.cc |
| | Energy graph class implementation.
|
| |
| file | EnergyGraph.fwd.hh |
| | Energy graph class forward declaration.
|
| |
| file | EnergyGraph.hh |
| | Energy graph class declaration.
|
| |
| file | EnergyMap.cc |
| | Vector of scores implementation.
|
| |
| file | EnergyMap.fwd.hh |
| | Vector of scores forward declaration.
|
| |
| file | EnergyMap.hh |
| | Vector of scores declaration.
|
| |
| file | EnvPairPotential.cc |
| |
| file | EnvPairPotential.fwd.hh |
| |
| file | EnvPairPotential.hh |
| |
| file | GenBornPotential.cc |
| |
| file | GenBornPotential.fwd.hh |
| |
| file | GenBornPotential.hh |
| |
| file | GenericBondedPotential.cc |
| |
| file | GenericBondedPotential.fwd.hh |
| | Probability of observing an amino acid, given its phi/psi energy method forward declaration.
|
| |
| file | GenericBondedPotential.hh |
| |
| file | HydroxylTorsionPotential.cc |
| | Potential for core/scoring/methods/HydroxyTorsionEnergy.
|
| |
| file | HydroxylTorsionPotential.fwd.hh |
| |
| file | HydroxylTorsionPotential.hh |
| |
| file | interpolation_util.hh |
| |
| file | LREnergyContainer.cc |
| |
| file | LREnergyContainer.fwd.hh |
| |
| file | LREnergyContainer.hh |
| |
| file | Membrane_FAPotential.cc |
| | Membrane FA Potential - Class for Fullatom Membrane Scoring Methods.
|
| |
| file | Membrane_FAPotential.fwd.hh |
| |
| file | Membrane_FAPotential.hh |
| |
| file | MembranePotential.cc |
| | Membrane Potential - Base Scoring Methods for LowRes Energy Function.
|
| |
| file | MembranePotential.fwd.hh |
| | Membrane Potential - Base Scoring Methods for LowRes Energy Function.
|
| |
| file | MembranePotential.hh |
| | Membrane Potential - Base Scoring Methods for LowRes Energy Function.
|
| |
| file | MembraneTopology.cc |
| |
| file | MembraneTopology.fwd.hh |
| |
| file | MembraneTopology.hh |
| |
| file | MinimizationData.cc |
| | A container class for use by certain EnergyMethods during derivative and.
|
| |
| file | MinimizationData.fwd.hh |
| | Forward declaration of the container class for use by certain EnergyMethods.
|
| |
| file | MinimizationData.hh |
| | A container class for use by certain EnergyMethods during derivative and.
|
| |
| file | MinimizationGraph.cc |
| | Minimization graph class implementation.
|
| |
| file | MinimizationGraph.fwd.hh |
| | Minimization graph class forward declaration.
|
| |
| file | MinimizationGraph.hh |
| | Minimization graph class declaration.
|
| |
| file | MinScoreScoreFunction.cc |
| |
| file | MinScoreScoreFunction.fwd.hh |
| | core::scoring::MinScoreScoreFunction forward declarations
|
| |
| file | MinScoreScoreFunction.hh |
| |
| file | MultipoleElecPotential.cc |
| |
| file | MultipoleElecPotential.fwd.hh |
| |
| file | MultipoleElecPotential.hh |
| |
| file | NeighborList.cc |
| |
| file | NeighborList.fwd.hh |
| | Foward declaration of NeighborList class and owning pointer typedefs.
|
| |
| file | NeighborList.hh |
| |
| file | NeighborList.tmpl.hh |
| |
| file | OmegaTether.cc |
| | OmegaTether potential class implementation.
|
| |
| file | OmegaTether.fwd.hh |
| | Omega Tether potential class forward delcaration.
|
| |
| file | OmegaTether.hh |
| | OmegaTether potential class delcaration.
|
| |
| file | OneToAllEnergyContainer.cc |
| | A container interface for storing and scoring long range energies.
|
| |
| file | OneToAllEnergyContainer.fwd.hh |
| |
| file | OneToAllEnergyContainer.hh |
| | A container interface for storing and scoring long range energies.
|
| |
| file | P_AA.cc |
| | Amino acid probability arrays and functions.
|
| |
| file | P_AA.fwd.hh |
| |
| file | P_AA.hh |
| | Amino acid probability arrays and functions.
|
| |
| file | P_AA_ABEGO3.cc |
| | Amino acid probability given an ABEGO (ramachandran bins) triplet/sequence, arrays and functions.
|
| |
| file | P_AA_ABEGO3.fwd.hh |
| | Amino acid probability given an ABEGO (ramachandran bins) triplet/sequence, arrays and functions.
|
| |
| file | P_AA_ABEGO3.hh |
| | Amino acid probability given an ABEGO (ramachandran bins) triplet/sequence, arrays and functions.
|
| |
| file | P_AA_ss.cc |
| | Amino acid probability arrays and functions.
|
| |
| file | P_AA_ss.fwd.hh |
| |
| file | P_AA_ss.hh |
| |
| file | PairEPotential.cc |
| | pairE knowledge-based potential class
|
| |
| file | PairEPotential.fwd.hh |
| | pairE knowledge-based potential class forward delcaration
|
| |
| file | PairEPotential.hh |
| |
| file | PointWaterPotential.cc |
| |
| file | PointWaterPotential.fwd.hh |
| |
| file | PointWaterPotential.hh |
| |
| file | PoissonBoltzmannPotential.cc |
| | PoissonBoltzmann potential class implementation.
|
| |
| file | PoissonBoltzmannPotential.fwd.hh |
| | PoissonBoltzmann potential class forward delcaration.
|
| |
| file | PoissonBoltzmannPotential.hh |
| | Poisson Boltzmann potential class delcaration.
|
| |
| file | PolymerBondedEnergyContainer.cc |
| | A container interface long range energies for polymer-bonded residue interactions only.
|
| |
| file | PolymerBondedEnergyContainer.fwd.hh |
| |
| file | PolymerBondedEnergyContainer.hh |
| | A container interface long range energies for polymer-bonded residue interactions only.
|
| |
| file | ProQPotential.cc |
| |
| file | ProQPotential.fwd.hh |
| | Membrane Potential.
|
| |
| file | ProQPotential.hh |
| |
| file | ProteinTorsion.hh |
| | Ramachandran potential class delcaration.
|
| |
| file | Ramachandran.cc |
| | Ramachandran potential class implementation.
|
| |
| file | Ramachandran.fwd.hh |
| | Ramachandran potential class forward declaration.
|
| |
| file | Ramachandran.hh |
| | Ramachandran potential class delcaration.
|
| |
| file | Ramachandran2B.cc |
| | Neighbor-dependent Ramachandran potential class implementation.
|
| |
| file | Ramachandran2B.fwd.hh |
| |
| file | Ramachandran2B.hh |
| | Neighbor-dependent Ramachandran potential class delcaration.
|
| |
| file | RamaPrePro.cc |
| |
| file | RamaPrePro.fwd.hh |
| |
| file | RamaPrePro.hh |
| | RamaPrePro potential class delcaration.
|
| |
| file | ResidualDipolarCoupling.cc |
| | Uses NMR RDC for scoring.
|
| |
| file | ResidualDipolarCoupling.fwd.hh |
| |
| file | ResidualDipolarCoupling.hh |
| | Uses NMR RDC for scoring.
|
| |
| file | ResidualDipolarCoupling_Rohl.cc |
| | Uses NMR RDC for scoring.
|
| |
| file | ResidualDipolarCoupling_Rohl.fwd.hh |
| |
| file | ResidualDipolarCoupling_Rohl.hh |
| |
| file | ResidueNeighborList.cc |
| |
| file | ResidueNeighborList.fwd.hh |
| | Forward declaration of a container class for use by the Etable and FA_Elec classes for storing residue-pair level atom-neighbor information.
|
| |
| file | ResidueNeighborList.hh |
| | A container class for use by the Etable and FA_Elec classes for storing lists of atom neighbors.
|
| |
| file | rms_enum.hh |
| |
| file | rms_util.cc |
| | RMS stuff from rosetta++.
|
| |
| file | rms_util.hh |
| |
| file | rms_util.tmpl.hh |
| |
| file | sasa.cc |
| | routines which calculate solvent accessible surface area
|
| |
| file | sasa.hh |
| | routines which calculate solvent accessible surface area
|
| |
| file | SASAPotential.cc |
| |
| file | SASAPotential.fwd.hh |
| |
| file | SASAPotential.hh |
| |
| file | ScoreFunction.cc |
| | Atom pair energy functions.
|
| |
| file | ScoreFunction.fwd.hh |
| | core::scoring::ScoreFunction forward declarations
|
| |
| file | ScoreFunction.hh |
| | Score function class.
|
| |
| file | ScoreFunctionFactory.cc |
| |
| file | ScoreFunctionFactory.hh |
| |
| file | ScoreFunctionInfo.cc |
| | Score function class descriptor.
|
| |
| file | ScoreFunctionInfo.fwd.hh |
| |
| file | ScoreFunctionInfo.hh |
| |
| file | ScoreType.cc |
| |
| file | ScoreType.hh |
| | Score type enumeration.
|
| |
| file | ScoreTypeManager.cc |
| | Method definitions for ScoreTypeManager.
|
| |
| file | ScoreTypeManager.hh |
| | Score type enumeration.
|
| |
| file | ScoringManager.cc |
| | Scoring manager class.
|
| |
| file | ScoringManager.fwd.hh |
| |
| file | ScoringManager.hh |
| | Scoring manager class header.
|
| |
| file | SecondaryStructurePotential.cc |
| | Scoring manager class header.
|
| |
| file | SecondaryStructurePotential.fwd.hh |
| |
| file | SecondaryStructurePotential.hh |
| |
| file | SecondaryStructureWeights.cc |
| |
| file | SecondaryStructureWeights.hh |
| |
| file | SmoothEnvPairPotential.cc |
| |
| file | SmoothEnvPairPotential.fwd.hh |
| |
| file | SmoothEnvPairPotential.hh |
| |
| file | SplitUnfoldedTwoBodyPotential.cc |
| | Reads in and stores the two body energies for each residue type for the split unfolded energy.
|
| |
| file | SplitUnfoldedTwoBodyPotential.fwd.hh |
| |
| file | SplitUnfoldedTwoBodyPotential.hh |
| | Reads in and stores the two body energies for each residue type for the split unfolded energy.
|
| |
| file | SS_Info.cc |
| |
| file | SS_Info.fwd.hh |
| | Data cache forward declarations for the secondary-structure based scores.
|
| |
| file | SS_Info.hh |
| |
| file | SS_Killhairpins_Info.cc |
| |
| file | SS_Killhairpins_Info.fwd.hh |
| |
| file | SS_Killhairpins_Info.hh |
| | Scoring manager class header.
|
| |
| file | TenANeighborGraph.cc |
| | Neighbor graph to represent for each residue the number of other residues within 10 Angstroms.
|
| |
| file | TenANeighborGraph.fwd.hh |
| | Ten Angstrom Neighbor graph class forward declaration.
|
| |
| file | TenANeighborGraph.hh |
| | Ten Angstrom Neighbor Graph class declaration.
|
| |
| file | TMscore.cc |
| |
| file | TMscore.hh |
| | reimplementation of TMscore sequence-based structure superposition
|
| |
| file | TwelveANeighborGraph.cc |
| | Neighbor graph to represent for each residue the number of other residues within 12 Angstroms.
|
| |
| file | TwelveANeighborGraph.fwd.hh |
| | Twelve Angstrom Neighbor graph class forward declaration.
|
| |
| file | TwelveANeighborGraph.hh |
| | Twelve Angstrom Neighbor Graph class declaration.
|
| |
| file | types.hh |
| | core::scoring package type declarations
|
| |
| file | UnfoldedStatePotential.cc |
| | Unfolded state energies based on energies of residues in fragments, definition file.
|
| |
| file | UnfoldedStatePotential.fwd.hh |
| | Unfolded state energies based on energies of residues in fragments, forward declaration.
|
| |
| file | UnfoldedStatePotential.hh |
| | Unfolded state energies based on energies of residues in fragments, declaration (header) file.
|
| |
| file | util.cc |
| | Nonmember functions for evaluating some or all energy methods on residues or residue pairs.
|
| |
| file | util.hh |
| | Nonmember functions for evaluating some or all energy methods on residues or residue pairs.
|
| |
| file | VdWTinkerPotential.cc |
| |
| file | VdWTinkerPotential.fwd.hh |
| |
| file | VdWTinkerPotential.hh |
| |
| file | WaterAdductHBondPotential.cc |
| |
| file | WaterAdductHBondPotential.fwd.hh |
| |
| file | WaterAdductHBondPotential.hh |
| |
| file | xml_util.cc |
| | Score function utilities useful in RosettaScripts.
|
| |
| file | xml_util.hh |
| | Score function utilities useful in RosettaScripts.
|
| |
1.8.7