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scoring Directory Reference
Directory dependency graph for scoring:
src/core/scoring

Directories

directory  aa_composition_energy
 
directory  annealing
 
directory  atomic_depth
 
directory  bin_transitions
 
directory  carbohydrates
 
directory  carbon_hbonds
 
directory  constraints
 
directory  cryst
 
directory  custom_pair_distance
 
directory  disulfides
 
directory  dna
 
directory  dssp
 
directory  elec
 
directory  electron_density
 
directory  electron_density_atomwise
 
directory  epr_deer
 
directory  etable
 
directory  facts
 
directory  fiber_diffraction
 
directory  func
 
directory  geometric_solvation
 
directory  hbonds
 
directory  interface_
 
directory  lkball
 
directory  loop_graph
 
directory  magnesium
 
directory  memb_etable
 
directory  membrane
 
directory  methods
 
directory  mhc_epitope_energy
 
directory  mm
 
directory  motif
 
directory  netcharge_energy
 
directory  nmer
 
directory  nmr
 
directory  nv
 
directory  orbitals
 
directory  packing
 
directory  packstat
 
directory  power_diagram
 
directory  rna
 
directory  sasa
 
directory  saxs
 
directory  sc
 
directory  solid_surface
 
directory  sym_e
 
directory  symmetry
 
directory  trie
 
directory  vdwaals
 

Files

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.