scores Directory Reference

Directory dependency graph for scores:

Files
file	ABEGO_SS_Score.cc
	scores a fragment by secondary structure similarity
file	ABEGO_SS_Score.hh
	scores a fragment by secondary structure similarity
file	AdaptiveScoreHistogram.cc
file	AdaptiveScoreHistogram.fwd.hh
	AdaptiveScoreHistogram forward declaration.
file	AdaptiveScoreHistogram.hh
	A very basic histogram to keep statistics of scores.
file	AmbigCSScore.cc
	Object that scores a fragment by target-observed/vall-predicted chemical shift distances.
file	AmbigCSScore.hh
	Object that scores a fragment by its crmsd to the native.
file	AtomBasedConstraintsScore.cc
file	AtomBasedConstraintsScore.fwd.hh
	AtomBasedConstraintsScore forward declaration.
file	AtomBasedConstraintsScore.hh
file	AtomPairConstraintsScore.cc
file	AtomPairConstraintsScore.fwd.hh
	FragmentScoreManager forward declaration.
file	AtomPairConstraintsScore.hh
file	BFactor.cc
	a base class for fragment scoring
file	BFactor.hh
	a base class for fragment scoring
file	CachingScoringMethod.hh
	adds cashing functionality to a FragmentScoringMethod object
file	ConstScore.hh
	score that adds a constant (so basically it does nothing!)
file	CSScore.cc
	Object that scores a fragment by target-observed/vall-predicted chemical shift distances.
file	CSScore.hh
	Object that scores a fragment by its crmsd to the native.
file	DihedralConstraintsScore.cc
	Calculates a score based on how close are dihdral angles in a Vall chunk to their target values.
file	DihedralConstraintsScore.fwd.hh
	DihedralConstraintsScore forward declaration.
file	DihedralConstraintsScore.hh
file	DisulfideDistance.cc
	Scores fragments by disulfide-linke Calpha distances.
file	DisulfideDistance.hh
	Scores fragments by disulfide-linke Calpha distances.
file	DisulfideIdentity.cc
	a base class for fragment scoring
file	DisulfideIdentity.hh
	a base class for fragment scoring
file	FourAtomsConstraintData.cc
	provides a holder for data necessary to create a single constraint based on four atoms
file	FourAtomsConstraintData.fwd.hh
	DihedralConstraintsScore forward declaration.
file	FourAtomsConstraintData.hh
	provides a holder for data necessary to create a single constraint based on four atoms
file	fragment_scoring_utilities.cc
	functions and data types common for fragment scoring
file	fragment_scoring_utilities.hh
	functions and data types common for fragment scoring
file	FragmentAllAtomCrmsd.cc
	Object that scores a fragment by its crmsd to the native.
file	FragmentAllAtomCrmsd.hh
	Object that scores a fragment by its crmsd to the native.
file	FragmentChunkCrms.cc
file	FragmentChunkCrms.hh
	Object that scores a fragment by its tmscore to the native.
file	FragmentCrmsd.cc
	Object that scores a fragment by its crmsd to the native.
file	FragmentCrmsd.hh
	Object that scores a fragment by its crmsd to the native.
file	FragmentCrmsdResDepth.cc
	Object that scores a fragment by its crmsd to the native.
file	FragmentCrmsdResDepth.hh
	Object that scores a fragment by its crmsd and residue depth to the native.
file	FragmentDME.cc
	Object that scores a fragment by its Distance Matrix Error (DME) to the native.
file	FragmentDME.hh
	Object that scores a fragment by its Distance Matrix Error (DME) to the native.
file	FragmentScoreManager.cc
file	FragmentScoreManager.fwd.hh
	FragmentScoreManager forward declaration.
file	FragmentScoreManager.hh
	Score manager.
file	FragmentScoreMap.fwd.hh
	FragmentScoreMap forward declaration.
file	FragmentScoreMap.hh
file	FragmentScoringMethod.fwd.hh
	FragmentScoringMethod forward declaration.
file	FragmentScoringMethod.hh
	a base class for fragment scoring
file	GunnCost.cc
file	GunnCost.hh
file	GunnCostScore.cc
	Object that scores a fragment by its crmsd to the native.
file	GunnCostScore.hh
	Object that scores a fragment by Gunn cost function (how it fits to the local structure)
file	HydrophobicityProfileSimilarity.cc
	a base class for fragment scoring
file	HydrophobicityProfileSimilarity.hh
	Object that scores a fragment by hydrophobicity.
file	HydrophobicitySimilarity.cc
	a base class for fragment scoring
file	HydrophobicitySimilarity.hh
	Object that scores a fragment by hydrophobicity.
file	InterbondAngleScore.cc
file	InterbondAngleScore.fwd.hh
	DihedralConstraintsScore forward declaration.
file	InterbondAngleScore.hh
file	JCoupling.cc
	Object that scores a fragment by root mean square deviation of Phi && Psi dihedrals.
file	JCoupling.hh
	Object that scores a fragment by its crmsd to the native.
file	LAMBEGO_Similarity.cc
file	LAMBEGO_Similarity.hh
	scores a fragment based on scores for a probability over torsion bins.
file	MidPhiOut.cc
	Object that scores a fragment by root mean square deviation of Phi && Psi dihedrals.
file	MidPhiOut.hh
	Object that scores a fragment by its crmsd to the native.
file	MidPsiOut.cc
	Object that scores a fragment by root mean square deviation of Psi && Psi dihedrals.
file	MidPsiOut.hh
	Object that scores a fragment by its crmsd to the native.
file	PartialSecondarySimilarity.cc
	scores a fragment by secondary structure similarity but throws out the worst 20% of the residue matches
file	PartialSecondarySimilarity.hh
	scores a fragment by secondary structure similarity but throws out the worst 20% of the residue matches
file	PCS_FragDistance.cc
	Scores fragments by disulfide-linke Calpha distances.
file	PCS_FragDistance.hh
	Scores fragments by disulfide-linke Calpha distances.
file	Phi.cc
	a base class for fragment scoring
file	Phi.hh
	Object that scores a fragment by predicted Phi torsions.
file	PhiPsiRmsd.cc
	Object that scores a fragment by root mean square deviation of Phi && Psi dihedrals.
file	PhiPsiRmsd.hh
	Object that scores a fragment by its crmsd to the native.
file	PhiPsiSquareWell.cc
	Object that scores a fragment by root mean square deviation of Phi && Psi dihedrals.
file	PhiPsiSquareWell.hh
	Object that scores a fragment by its crmsd to the native.
file	ProfileScore.cc
	scores a fragment by an amino acid sequence identity
file	ProfileScore.fwd.hh
	FragmentScoringMethod forward declaration.
file	ProfileScore.hh
	scores a fragment by an amino acid sequence identity
file	ProfileScoreBlosum62.cc
	scores a fragment by an amino acid sequence identity
file	ProfileScoreBlosum62.hh
	scores a fragment by Blosum62 profile score
file	ProfileScoreDistWeight.cc
	scores a fragment by weighting L1 profile distances by residue type
file	ProfileScoreDistWeight.hh
	scores a fragment by weighting L1 profile distances by residue type
file	ProfileScoreL1.cc
	scores a fragment by an amino acid sequence identity
file	ProfileScoreL1.hh
	scores a fragment by L1 profile score
file	ProfileScoreStructL1.cc
	scores a fragment using structure based profiles
file	ProfileScoreStructL1.hh
	scores a fragment by L1 structure based profile score
file	ProfileScoreSubMatrix.cc
	scores a fragment by substitution matrix (e.g. Blosum62) profile score
file	ProfileScoreSubMatrix.hh
	scores a fragment by substitution matrix (e.g. Blosum62) profile score
file	ProlinePhiScore.cc
	a base class for fragment scoring
file	ProlinePhiScore.hh
	a base class for fragment scoring
file	Psi.cc
	a base class for fragment scoring
file	Psi.hh
	Object that scores a fragment by predicted Psi torsions.
file	PValuedFragmentScoreManager.cc
file	PValuedFragmentScoreManager.hh
	Score manager that stores statistics of all scores. This allows estimate p-value for a score.
file	RamaScore.cc
	Ramachandran surface scores for fragment picking.
file	RamaScore.hh
	a base class for fragment scoring
file	RDCScore.cc
	Object that scores a fragment by its RDC.
file	RDCScore.hh
	Object that scores a fragment by its crmsd to the native.
file	ScoreEValuator.cc
	scores a fragment by an amino acid sequence identity
file	ScoreEValuator.hh
	Object that scores a fragment by its crmsd to the native.
file	SecondaryIdentity.cc
	scores a fragment by an amino acid sequence identity
file	SecondaryIdentity.hh
	scores a fragment by an amino acid sequence identity
file	SecondarySimilarity.cc
	scores a fragment by secondary structure similarity
file	SecondarySimilarity.hh
	scores a fragment by secondary structure similarity
file	SequenceIdentity.cc
	a base class for fragment scoring
file	SequenceIdentity.hh
	a base class for fragment scoring
file	SolventAccessibility.cc
	a base class for fragment scoring
file	SolventAccessibility.hh
	Object that scores a fragment by predicted solvent accessibility.
file	TalosSSSimilarity.cc
	scores a fragment by secondary structure similarity
file	TalosSSSimilarity.hh
	scores a fragment by secondary structure similarity
file	TorsionBinSimilarity.cc
file	TorsionBinSimilarity.hh
	scores a fragment based on scores for a probability over torsion bins.