Index

Symbols | A | B | C | D | E | F | G | H | I | J | K | L | M | N | O | P | Q | R | S | T | U | V | W | Z

Symbols

-in

command line option, [1], [2]

-method

command line option

-optimize

command line option

-out

command line option, [1], [2]

-receptor

command line option, [1], [2]

-resolution

command line option

-score

command line option

A

AbsPath

OEPlatform::OEFile

Acquire

OEPlatform::OECondition
OEPlatform::OEMutex
OEPlatform::OESpinlock
OEPlatform::OETryMutex

AdaptGrad

OEMolPotential::OEInterAdaptor
OEMolPotential::OEQuatAdaptor
OEMolPotential::OESubsetAdaptor
OEMolPotential::OETorAdaptor
OEMolPotential::OETorQuatAdaptor

AdaptHessian

OEMolPotential::OESubsetAdaptor

AdaptVar

OEOpt::OEAdaptor

Add

OEChem::OEAtomBondSet
OEChem::OEIsMember
OEChem::OEIsMemberPtr
OEChem::OEVectorBindings

AddAlias

OESystem::OEParameter

AddAtom

OEBio::OEInteractionHintFragment
OEChem::OEAtomBondSet
OEChem::OEConfBase
OEChem::OEGroupBase

AddAtoms

OEChem::OEAtomBondSet

AddBaseData

OESystem::OEBase

AddBond

OEChem::OEAtomBase
OEChem::OEAtomBondSet
OEChem::OEConfBase
OEChem::OEGroupBase

AddBonds

OEChem::OEAtomBondSet

AddChild

OESystem::OEAnnotation

AddColorer

OEShape::OEColorForceField

AddColorGaussian

OEShape::OEShapeQuery

AddConstMol

OEMedChem::OEMCSFragDatabase

AddConstraint

OEChem::OECliqueSearch
OEChem::OEMCSSearch
OEChem::OESubSearch

AddCurveSegment

OEDepict::OE2DPath

AddCutoff

OEShape::OEROCSOptions

AddData

OESystem::OEBase

AddDefault

OESystem::OETypedParameter

AddDetail

OESystem::OEInterface
OESystem::OEParameter

AddFeature

OEDocking::OECustomConstraints

AddFlexibleResidue

OESz::OESzybkiProteinOptions

AddFP

OEGraphSim::OEFPDatabase

AddFragLib

OEConfGen::OEOmega

AddGaussian

OESystem::OEGaussianContainer
OESystem::OEGaussianContainerBase

AddHistory

OESystem::OEHeader

AddIllegalRange

OESystem::OEParameter

AddIllegalValue

OESystem::OEParameter

AddInteraction

OEShape::OEColorForceField

AddInterface

OESystem::OEInterface

AddLabel

OEGrapheme::OEColorGradientDisplayOptions

AddLegalRange

OESystem::OEParameter

AddLegalValue

OESystem::OEParameter

AddLigandName

OEBio::OEMolComplexCategorizer

AddLineSegment

OEDepict::OE2DPath

AddMarkedValue

OEGrapheme::OEColorGradientDisplayOptions

AddMarkedValues

OEGrapheme::OEColorGradientDisplayOptions

AddMatchedPair

OEMedChem::OEMatchedPairTransform

AddMol

OEFastROCS::OEShapeDatabase
OEMedChem::OEMCSFragDatabase
OEMedChem::OEMatchedPairAnalyzer

AddMolecule

OEBio::OEInteractionHintContainer
OEMedChem::OEMatchedPairTransform
OEShape::OEROCS

AddMoleculeInstance

OEMedChem::OEMatchedPairTransform

AddMoleculeTitle

OEMedChem::OEMatchedPairTransform

AddMolFunc

OEMolPotential::OEGenericFF
OEMolPotential::OEGenericFF2

AddNormalizationRule

OEMolProp::OEFilter

AddPair

OEChem::OEMatch

AddParameter

OESystem::OEInterface

AddRings

OEChem::OE2DRingDictionary

AddRole

OESystem::OERoleSet

AddSample

OEGraphSim::OEFPHistogram
OEGraphSim::OEFPVariogram

AddScore

OEShape::OEBestOverlayResults
OEShape::OEROCSResult

AddSDData

OEMedChem::OEMatchedPair

AddShapeGaussian

OEShape::OEShapeQuery

AddSiteResidue

OESpruce::OESuperpositionOptions

AddSmarts

OEDocking::OEFeature

AddSphere

OEDocking::OEFeature

AddStartingMaterial

OEChem::OELibraryGen

AddStartPoint

OEDepict::OE2DPath

AddStop

OESystem::OEColorGradientBase

addstream

OEPlatform::oemultiostream

AddStringDefault

OESystem::OEParameter

AddStringValue

OESystem::OEParameter

AddSVGClass

OEDepict::OESVGGroup

AddToDB

OEBio::OEResidueCategoryData

AddTorsionLibrary

OEConfGen::OETorLib

AddTorsionRule

OEConfGen::OETorLib

AddType

OEShape::OEColorForceField

AddValue

OESystem::OETypedParameter

AIER

Alignment

Alternate Locations

AltLoc AltConf OEAltLocationFactory

anisou.cpp

Example Code

AnnotatePose

OEDocking::OEDock
OEDocking::OEDockBase
OEDocking::OEHybrid
OEDocking::OEScore
OEDocking::OEScoreBase

append

OEPlatform::oeofstream

appendringdict.cpp

Example Code

aromatic ring system identification

AsRegularGrid

OESystem::OESkewGrid

assigncharges.cpp

Example Code

assigncharges.txt

Example Code

atom heavy degree

atom heavy valence

atom ring membership

atom stereo

atom type name

atom valence

atomic hybridization

atomic number, [1]

atomic symbol

AtomMatch

OEChem::OESubSearch

B

backbone.cpp

Example Code

bemismurckoperception.cpp

Example Code

besthit.cpp

Example Code

BestOverlay

OEShape::OEMultiRefOverlay
OEShape::OEOverlay

Beta Sheet

bfactor2img.cpp

Example Code

bfactor2img.txt

Example Code

Bind

OEPB::OEBind

bind.cpp

Example Code

Biopolymer Residue

BLOSUM62

bond aromaticity

bond begin atom

bond begin atom index

bond chirality

bond end atom

bond end atom index

bond ring membership

bond stereo, [1]

bond type name

bound_entropy.cpp

Example Code

Broadcast

OEPlatform::OECondition

BuildExpressions

OEChem::OEQMol
OEChem::OEQMolBase

building toolkit projects, [1], [2]

C

CacheScoringSetup

OEDocking::OEDock
OEDocking::OEDockBase
OEDocking::OEHybrid
OEDocking::OEPosit
OEDocking::OEScore
OEDocking::OEScoreBase

calc_et.cpp

Example Code

CalcAM1

OEMolAM1::OEAM1

CalcAtomPotentials

OEPB::OEZap

CalcForces

OEPB::OEZap

CalcPotentialGrid

OEPB::OEZap

CalcSolvationEnergy

OEPB::OEZap

canonical isomeric SMILES, [1]

canonical SMILES, [1]

cansmi.cpp

Example Code

catmols.cpp

Example Code

CheckAtomTypes

OESzmap::OESzmapEngine

CheckCharges

OEProton::OEChargeEngineBase

chemblsolubility.cpp

Example Code

chiral atom

chiral bond

CIP

ClassID

OESystem::OEParameter

Classification

Clear

OEBio::OESequenceAlignment
OEChem::OEAtomBase
OEChem::OEAtomBondSet
OEChem::OEBondBase
OEChem::OECSVHeader
OEChem::OEGroupBase
OEChem::OEMatch
OEChem::OEMatchBase
OEChem::OEMolBase
OEChem::OEMolDatabase
OEChem::OETrans
OEDepict::OEAlignmentResult
OEDepict::OEImage
OEDepict::OEImageBase
OEDepict::OEImageFrame
OEDocking::OECustomConstraints
OEMolPotential::OEInteractParams
OEMolPotential::OEMolFunc
OEShape::OEBestOverlayResults
OEShape::OEColorForceField
OEShape::OEShapeQuery
OESpicoli::OESurface
OESystem::OEBase
OESystem::OEBinaryIOHandler
OESystem::OEBinaryIOHandlerBase
OESystem::OEErrorHandler
OESystem::OEErrorHandlerImplBase
OESystem::OEGaussianContainer
OESystem::OEGaussianContainerBase
OESystem::OEGrid
OESystem::OEGridAbstractBase
OESystem::OEGridBase
OESystem::OEInterface
OESystem::OEMultiGrid
OESystem::OEScalarGrid
OESystem::OESkewGrid
OESz::OESzybkiResults
OESzmap::OESzmapResults

clear

OEPlatform::oeisstream
OEPlatform::oeistdstream
OEPlatform::oeiwrapperstream
OEPlatform::oemultiostream
OEPlatform::oeosstream
OEPlatform::oeostdstream
OEPlatform::oeowrapperstream

ClearAtoms

OEChem::OEAtomBondSet

ClearAtomsAndBonds

OEChem::OEAtomBondSet

ClearBase

OEChem::OEMCMolBase
OEChem::OEMol
OEChem::OEMolBase

ClearBits

OESystem::OEBitVector

ClearBonds

OEChem::OEAtomBondSet

ClearBoxRange

OEGrapheme::OEColorGradientDisplayOptions

ClearColorForceField

OEShape::OEBestOverlay

ClearColorGaussians

OEShape::OEShapeQuery

ClearConstraints

OEChem::OECliqueSearch
OEChem::OEMCSSearch
OEChem::OESubSearch

ClearCoords

OEChem::OEConfBase
OEChem::OEMolBase

ClearCSVHeader

OEChem::oemolstreambase

ClearCutoff

OEFastROCS::OEShapeDatabaseOptions
OEGraphSim::OEFPDatabase
OEGraphSim::OEFPDatabaseOptions

ClearCutoffs

OEShape::OEROCSOptions

ClearDBCategory

OEBio::OEResidueCategoryData

ClearDefaults

OESystem::OEParameter

ClearFixAtoms

OESz::OESzybki

ClearFixFile

OEConfGen::OEOmegaOptions

ClearFlexibleResidues

OESz::OESzybkiProteinOptions

ClearFocusTarget

OEPB::OEZap

ClearFragLibs

OEConfGen::OEOmega

ClearHarmonicConstraints

OESz::OESzybki

ClearIndexableFragmentRange

OEMedChem::OEMCSFragDatabaseOptions
OEMedChem::OEMatchedPairAnalyzerOptions

ClearIndexedMols

OEMedChem::OEMCSFragDatabase

ClearInteractions

OEShape::OEColorForceField

ClearLabels

OEGrapheme::OEColorGradientDisplayOptions

ClearLigandSubSearch

OEBio::OEMolComplexCategorizer

ClearMarkedValues

OEGrapheme::OEColorGradientDisplayOptions

ClearMCMol

OEChem::OEMCMolBase
OEChem::OEMol

ClearMolBase

OEChem::OEMCMolBase
OEChem::OEMol

ClearMolecule

OEShape::OEShapeQuery

ClearMolecules

OEShape::OEROCS

ClearNormalizationRules

OEMolProp::OEFilter

ClearPredicates

OEMolPotential::OEMolFunc
OEShape::OEHermiteShapeFunc

ClearQuerySurfaceArcFxn

OEGrapheme::OEColorOverlapDisplayOptions
OEGrapheme::OEShapeOverlapDisplayOptions

ClearRoles

OESystem::OERoleSet

ClearSDData

OEMedChem::OEMatchedPair

ClearShapeGaussians

OEShape::OEShapeQuery

ClearShapeGrid

OEShape::OEShapeQuery

ClearSiteResidues

OESpruce::OESuperpositionOptions

ClearSmarts

OEDocking::OEFeature

ClearSpheres

OEDocking::OEFeature

ClearStartingMaterial

OEChem::OELibraryGen

ClearStartPoints

OEShape::OECartesianStarts

ClearStarts

OEShape::OEQuatStarts

ClearSurfaceArcFxn

OEGrapheme::OEShapeQueryDisplayOptions

ClearTorsionConstraint

OESz::OESzybki

ClearTorsionLibrary

OEConfGen::OETorLib

ClearTracer

OEFastROCS::OEShapeDatabaseOptions

ClearUserStarts

OEFastROCS::OEShapeDatabaseOptions
OEShape::OEBestOverlay

ClearValues

OESystem::OEParameter

ClearVertexClique

OESpicoli::OESurface

cliquealign.cpp

Example Code

Close

OEPlatform::OEDirectoryScan

close

OEChem::oemolistream
OEChem::oemolithread
OEChem::oemolostream
OEChem::oemolothread
OEChem::oemolstreambase
OEPlatform::oeistream
OEPlatform::oeostream

ClusterHasBadClash

OEBio::OEPlaceHydrogensDetails

CMake, [1], [2], [3]

coloroverlap.cpp

Example Code

ColorScore

OEShape::OEColorOverlap

colorscore.cpp

Example Code

CombineMols

OEChem::OEAbsCanonicalConfTest
OEChem::OEAbsoluteConfTest
OEChem::OEConfTestBase
OEChem::OEDefaultConfTest
OEChem::OEIsomericConfTest
OEChem::OEOmegaConfTest

Command Line

command line option

-in, [1], [2]
-method
-optimize
-out, [1], [2]
-receptor, [1], [2]
-resolution
-score

command line options parsing

CompareMols

OEChem::OEAbsCanonicalConfTest
OEChem::OEAbsoluteConfTest
OEChem::OEConfTestBase
OEChem::OEDefaultConfTest
OEChem::OEIsomericConfTest
OEChem::OEOmegaConfTest

Comparison Operators

OEChem::OEResidue

compiler

complex2img.cpp

Example Code

complex2img.txt

Example Code

Compress

OEChem::OEMolBase
OEChem::OETrans

configure, [1]

configure.bat, [1]

connected components identification

Constructor

OEDocking::OEDock
OEDocking::OEHybrid
OEDocking::OEPosit
OEDocking::OEPositOptions
OEDocking::OEScore

Constructors

OEBio::OEAltGroup
OEBio::OEAltLocation
OEBio::OEAltLocationFactory
OEBio::OEAltLocationState
OEBio::OECationPiInteractionHint
OEBio::OEChelatorInteractionHint
OEBio::OEClashInteractionHint
OEBio::OEContactInteractionHint
OEBio::OECovalentInteractionHint
OEBio::OECrystalSymmetryParams
OEBio::OEHBondInteractionHint
OEBio::OEHalogenBondInteractionHint
OEBio::OEHasAlternateLocation
OEBio::OEHasInteractionHint
OEBio::OEHasInteractionHintType
OEBio::OEHasPDBAtomIndex
OEBio::OEHasResidueInteractionHint
OEBio::OEHasSecondaryStructure
OEBio::OEHierChain
OEBio::OEHierFragment
OEBio::OEHierResidue
OEBio::OEHierView
OEBio::OEInteractionHint
OEBio::OEInteractionHintComponentTypeBase
OEBio::OEInteractionHintContainer
OEBio::OEInteractionHintFragment
OEBio::OEInteractionHintTypeBase
OEBio::OEIsBackboneAtom
OEBio::OEIsCationPiInteractionHint
OEBio::OEIsChelatorInteractionHint
OEBio::OEIsClashInteractionHint
OEBio::OEIsContactInteractionHint
OEBio::OEIsCovalentInteractionHint
OEBio::OEIsHBondInteractionHint
OEBio::OEIsHalogenBondInteractionHint
OEBio::OEIsInterInteractionHint
OEBio::OEIsIntermolecularChelatorInteractionHint
OEBio::OEIsIntermolecularHBondInteractionHint
OEBio::OEIsIntraInteractionHint
OEBio::OEIsIntramolecularChelatorInteractionHint
OEBio::OEIsIntramolecularHBondInteractionHint
OEBio::OEIsSaltBridgeInteractionHint
OEBio::OEIsStackingInteractionHint
OEBio::OEIsUnpairedLigandInteractionHint
OEBio::OEIsUnpairedProteinInteractionHint
OEBio::OELigandInteractionHintComponent
OEBio::OEMolComplexCategorizer
OEBio::OEMolComplexFilter
OEBio::OEPerceiveInteractionOptions
OEBio::OEPlaceHydrogensDetails
OEBio::OEPlaceHydrogensMoverNote
OEBio::OEPlaceHydrogensOptions
OEBio::OEProteinInteractionHintComponent
OEBio::OEResidueCategoryData
OEBio::OESaltBridgeInteractionHint
OEBio::OESequenceAlignment
OEBio::OESplitMolComplexOptions
OEBio::OEStackingInteractionHint
OEChem::OE2DRingDictionary
OEChem::OE2DRingDictionaryCreatorOptions
OEChem::OEAbsoluteConfTest
OEChem::OEAnisoUij
OEChem::OEAtomBondSet
OEChem::OEAtomIsInResidue
OEChem::OECSVHeader
OEChem::OECliqueSearch
OEChem::OEConstCoords
OEChem::OECoordArray
OEChem::OEEuler
OEChem::OEExprBase
OEChem::OEExtractRingTemplateOptions
OEChem::OEFuzzy
OEChem::OEGetNbrAtom
OEChem::OEGraphMol
OEChem::OEHasAlphaBetaUnsat
OEChem::OEHasAtomInGroup
OEChem::OEHasAtomName
OEChem::OEHasAtomStereoSpecified
OEChem::OEHasAtomicNum
OEChem::OEHasBondInGroup
OEChem::OEHasBondStereoSpecified
OEChem::OEHasChainID
OEChem::OEHasFormalCharge
OEChem::OEHasFragmentNumber
OEChem::OEHasGroupType
OEChem::OEHasHvyDegree
OEChem::OEHasIdx
OEChem::OEHasMapIdx
OEChem::OEHasOrder
OEChem::OEHasResidueNumber
OEChem::OEIdxSelected
OEChem::OEInChIOptions
OEChem::OEInSamePart
OEChem::OEIsAtomHybridization
OEChem::OEIsMDLStereoGroup
OEChem::OEIsMember
OEChem::OEIsMemberPtr
OEChem::OEIsProductGroup
OEChem::OEIsRGroup
OEChem::OEIsReactantGroup
OEChem::OEIsRotor
OEChem::OEIsRxnComponentGroup
OEChem::OEIsomericConfTest
OEChem::OELibraryGen
OEChem::OELingoSim
OEChem::OEMCSMaxAtomsCompleteCycles
OEChem::OEMCSMaxBondsCompleteCycles
OEChem::OEMCSSearch
OEChem::OEMMFFTypeResult
OEChem::OEMatch
OEChem::OEMatchFunc
OEChem::OEMatchPair
OEChem::OEMol
OEChem::OEMolDBException
OEChem::OEMolDatabase
OEChem::OEMolDatabaseSaveOptions
OEChem::OEMutableCoords
OEChem::OENbrs
OEChem::OENearestNbrs
OEChem::OENthAtom
OEChem::OEOmegaConfTest
OEChem::OEParseSmilesOptions
OEChem::OEPartPredT
OEChem::OEQMol
OEChem::OEQMolBase
OEChem::OEQuaternion
OEChem::OEResidue
OEChem::OERotMatrix
OEChem::OESDDataPair
OEChem::OESimilarByRMSD
OEChem::OESubSearch
OEChem::OETorsion
OEChem::OETrans
OEChem::OETranslation
OEChem::OEUnaryToBinaryAnd
OEChem::OEUnaryToBinaryOr
OEChem::OEUniMolecularRxn
OEChem::OEVectorBindings
OEChem::oemolistream
OEChem::oemolithread
OEChem::oemolostream
OEChem::oemolothread
OEConfGen::OEOmega
OEConfGen::OEOmegaOptions
OEConfGen::OETorLib
OEConstr::OEHarmonicPotential
OEDepict::OE2DAtomDisplay
OEDepict::OE2DBondDisplay
OEDepict::OE2DMolDisplay
OEDepict::OE2DMolDisplayOptions
OEDepict::OE2DPath
OEDepict::OE2DPathPoint
OEDepict::OE2DPoint
OEDepict::OEAlignmentOptions
OEDepict::OEAlignmentResult
OEDepict::OEAtomSVGAtomIdxMarkup
OEDepict::OEAtomSVGNoMarkup
OEDepict::OEAtomSVGResidueMarkup
OEDepict::OEDisplayAtomIdx
OEDepict::OEDisplayAtomMapIdx
OEDepict::OEDisplayBondIdx
OEDepict::OEDisplayNoAtomProp
OEDepict::OEDisplayNoBondProp
OEDepict::OEFont
OEDepict::OEHighlightBase
OEDepict::OEHighlightByBallAndStick
OEDepict::OEHighlightByCogwheel
OEDepict::OEHighlightByColor
OEDepict::OEHighlightByLasso
OEDepict::OEHighlightByStick
OEDepict::OEHighlightLabel
OEDepict::OEHighlightOverlayBase
OEDepict::OEHighlightOverlayByBallAndStick
OEDepict::OEImage
OEDepict::OEImageBase
OEDepict::OEImageFileBase
OEDepict::OEImageFileCreatorBase
OEDepict::OEImageFrame
OEDepict::OEImageGrid
OEDepict::OEImageTable
OEDepict::OEImageTableOptions
OEDepict::OEJavaImageBase
OEDepict::OEMultiPageImageFile
OEDepict::OENearestAtom
OEDepict::OENearestBond
OEDepict::OEPen
OEDepict::OEPrepareDepictionOptions
OEDepict::OEReport
OEDepict::OEReportOptions
OEDepict::OESVGClass
OEDepict::OESVGGroup
OEDocking::OEBox
OEDocking::OECustomConstraints
OEFF::OEMMFFAmber
OEFF::OEMMFFAmberOptions
OEFF::OEMMFFIEFF
OEFF::OEMMFFIEFFOptions
OEFastROCS::OEDBTracer
OEFastROCS::OEFastROCSHistogram
OEFastROCS::OEShapeDatabase
OEFastROCS::OEShapeDatabaseOptions
OEFastROCS::OEShapeDatabaseScore
OEGraphSim::OECreateFastFPDatabaseOptions
OEGraphSim::OEFPDatabase
OEGraphSim::OEFPDatabaseOptions
OEGraphSim::OEFPHistogram
OEGraphSim::OEFPPattern
OEGraphSim::OEFPTypeBase
OEGraphSim::OEFPTypeParams
OEGraphSim::OEFPVariogram
OEGraphSim::OEFastFPDatabase
OEGraphSim::OEFastFPDatabaseParams
OEGraphSim::OEFingerPrint
OEGraphSim::OESimFuncBase
OEGraphSim::OESimScore
OEGraphSim::OETanimotoSim
OEGraphSim::OETverskySim
OEGrapheme::OE2DActiveSiteDisplay
OEGrapheme::OE2DActiveSiteDisplayOptions
OEGrapheme::OE2DActiveSiteLegendDisplayOptions
OEGrapheme::OE2DPropMap
OEGrapheme::OEAlignedDepictionFrom3DOptions
OEGrapheme::OEAlphaRainbowArcFxn
OEGrapheme::OEAtomGlyphBase
OEGrapheme::OEAtomGlyphCircle
OEGrapheme::OEBondGlyphArrow
OEGrapheme::OEBondGlyphBase
OEGrapheme::OEBondGlyphCircle
OEGrapheme::OEBondGlyphCross
OEGrapheme::OEBondGlyphCurvedArrow
OEGrapheme::OEBondGlyphScissors
OEGrapheme::OEBondGlyphStitch
OEGrapheme::OEBondGlyphZigZag
OEGrapheme::OEBrickRoadArcFxn
OEGrapheme::OECastleArcFxn
OEGrapheme::OECogArcFxn
OEGrapheme::OEColorForceFieldDisplay
OEGrapheme::OEColorForceFieldLegendDisplayOptions
OEGrapheme::OEColorGradientDisplayOptions
OEGrapheme::OEColorGradientLabel
OEGrapheme::OEColorOverlapDisplayOptions
OEGrapheme::OEComplexSurfaceArcFxnBase
OEGrapheme::OEDefaultArcFxn
OEGrapheme::OEDefaultBuriedArcFxn
OEGrapheme::OEDefaultCavityArcFxn
OEGrapheme::OEDefaultSolventArcFxn
OEGrapheme::OEDefaultVoidArcFxn
OEGrapheme::OEDepictionFrom3DOptions
OEGrapheme::OEEyelashArcFxn
OEGrapheme::OEFlowerArcFxn
OEGrapheme::OENearestResidue
OEGrapheme::OENecklaceArcFxn
OEGrapheme::OEOliveBranchArcFxn
OEGrapheme::OEPearlsArcFxn
OEGrapheme::OEPeptideDisplayOptions
OEGrapheme::OERaceTrackArcFxn
OEGrapheme::OERailroadTrackArcFxn
OEGrapheme::OEResidueSVGNoMarkup
OEGrapheme::OEResidueSVGStandardMarkup
OEGrapheme::OESawArcFxn
OEGrapheme::OEShapeOverlapDisplay
OEGrapheme::OEShapeOverlapDisplayOptions
OEGrapheme::OEShapeQueryDisplay
OEGrapheme::OEShapeQueryDisplayOptions
OEGrapheme::OESimpsonArcFxn
OEGrapheme::OEStitchArcFxn
OEGrapheme::OESunArcFxn
OEGrapheme::OESurfaceArc
OEGrapheme::OEWreathArcFxn
OEMedChem::OEMCSFragDatabase
OEMedChem::OEMCSFragDatabaseOptions
OEMedChem::OEMCSMolSimScore
OEMedChem::OEMCSSimFuncBase
OEMedChem::OEMCSTanimotoSim
OEMedChem::OEMCSTverskySim
OEMedChem::OEMatchedPair
OEMedChem::OEMatchedPairAnalyzer
OEMedChem::OEMatchedPairAnalyzerOptions
OEMedChem::OEMatchedPairTransform
OEMedChem::OEMatchedPairTransformExtractOptions
OEMolAM1::OEAM1
OEMolAM1::OEAM1Options
OEMolAM1::OEAM1Results
OEMolMMFF::OEMMFF
OEMolMMFF::OEMMFF94sParams
OEMolMMFF::OEMMFFBend
OEMolMMFF::OEMMFFCoulomb
OEMolMMFF::OEMMFFInterCoulomb
OEMolMMFF::OEMMFFInterVdw
OEMolMMFF::OEMMFFInterVdwNN
OEMolMMFF::OEMMFFOutOfPlane
OEMolMMFF::OEMMFFParams
OEMolMMFF::OEMMFFStretch
OEMolMMFF::OEMMFFStretchBend
OEMolMMFF::OEMMFFTorsion
OEMolMMFF::OEMMFFVdw
OEMolPotential::OEGenericFF
OEMolPotential::OEGenericFF2
OEMolPotential::OEInterAdaptor
OEMolPotential::OEInteraction
OEMolPotential::OENumericMolFunc2
OEMolPotential::OEQuatAdaptor
OEMolPotential::OEScaledMolFunc
OEMolPotential::OESubsetAdaptor
OEMolPotential::OETorAdaptor
OEMolPotential::OETorQuatAdaptor
OEMolProp::OEFilter
OEMolProp::OEXLogPResult
OEOpt::OEBFGSOpt
OEOpt::OECGLineMinimize
OEOpt::OEConjGradOpt
OEOpt::OEDFPOpt
OEOpt::OEFComponent
OEOpt::OEFletcherReevesOpt
OEOpt::OEHestenesStiefelOpt
OEOpt::OEMaxStepLineMinimize
OEOpt::OENRLineSearch
OEOpt::OENewtonOpt
OEOpt::OEQNLineMinimize
OEOpt::OERibierePolakOpt
OEOpt::OESteepestDescentOpt
OEPB::OEArea
OEPB::OEBind
OEPB::OEBindResults
OEPB::OEET
OEPB::OESimpleBindResults
OEPB::OEZap
OEPlatform::OECondition
OEPlatform::OEDirectoryScan
OEPlatform::OEFile
OEPlatform::OEHalfFloat
OEPlatform::OELock
OEPlatform::OELockCondition
OEPlatform::OELockSpinlock
OEPlatform::OEMutex
OEPlatform::OESpinlock
OEPlatform::OEThread
OEPlatform::OEThreadLocal
OEPlatform::OETryMutex
OEPlatform::oeifstream
OEPlatform::oeigzstream
OEPlatform::oeiofstream
OEPlatform::oeisstream
OEPlatform::oeistdstream
OEPlatform::oeistream
OEPlatform::oeiwrapperstream
OEPlatform::oemultiostream
OEPlatform::oeofstream
OEPlatform::oeogzstream
OEPlatform::oeosstream
OEPlatform::oeostdstream
OEPlatform::oeostream
OEPlatform::oeowrapperstream
OEPlatform::oestream
OEProton::OEAM1BCCCharges
OEProton::OEAM1BCCELF10Charges
OEProton::OEAM1Charges
OEProton::OEAmberFF94Charges
OEProton::OEChargeEngineNoOp
OEProton::OEClearCharges
OEProton::OECombineChargeEngines
OEProton::OEELFCharges
OEProton::OEFormalChargeOptions
OEProton::OEFormalToPartialCharges
OEProton::OEGasteigerCharges
OEProton::OEInitialCharges
OEProton::OEMMFF94Charges
OEProton::OETautomerMolFunction
OEProton::OETautomerOptions
OEProton::OETyperMolFunction
OEShape::OEAnalyticColorFunc
OEShape::OEAnalyticOptions
OEShape::OEAnalyticShapeFunc
OEShape::OEAsIsStarts
OEShape::OEAtAtomStarts
OEShape::OEBestOverlay
OEShape::OEBestOverlayResults
OEShape::OEBestOverlayScore
OEShape::OECartesianStarts
OEShape::OEColorForceField
OEShape::OEColorOptions
OEShape::OEColorOverlap
OEShape::OEColorResults
OEShape::OEColorTanimotoCutoff
OEShape::OEExactColorFunc
OEShape::OEExactShapeFunc
OEShape::OEFitColorTverskyCutoff
OEShape::OEFitTverskyComboCutoff
OEShape::OEFitTverskyCutoff
OEShape::OEGridColorFunc
OEShape::OEGridShapeFunc
OEShape::OEHermite
OEShape::OEHermiteOptions
OEShape::OEHermiteShapeFunc
OEShape::OEHighestTverskyCombo
OEShape::OEInertialStarts
OEShape::OEIsColorAtomPred
OEShape::OEMultiRefOverlay
OEShape::OEOverlap
OEShape::OEOverlapCutoff
OEShape::OEOverlapFunc
OEShape::OEOverlapPrep
OEShape::OEOverlapResults
OEShape::OEOverlay
OEShape::OEOverlayOptions
OEShape::OEQuatStarts
OEShape::OEROCS
OEShape::OEROCSOptions
OEShape::OEROCSResult
OEShape::OERandomStarts
OEShape::OERefColorTverskyCutoff
OEShape::OERefTverskyComboCutoff
OEShape::OERefTverskyCutoff
OEShape::OEShapeGridOptions
OEShape::OEShapeOptions
OEShape::OEShapeQuery
OEShape::OEShapeQueryPublic
OEShape::OESubrocsStarts
OEShape::OETanimotoComboCutoff
OEShape::OETanimotoCutoff
OESheff::OESheffield
OESheff::OESheffieldOptions
OESpicoli::OESurface
OESpruce::OESecondaryStructureSuperposition
OESpruce::OEStructuralSuperposition
OESpruce::OESuperpositionOptions
OESystem::OEAnd
OESystem::OEAnnotation
OESystem::OEBInitializer
OESystem::OEBase
OESystem::OEBaseData
OESystem::OEBaseDataT
OESystem::OEBinaryAnd
OESystem::OEBinaryIOHandler
OESystem::OEBinaryNot
OESystem::OEBinaryOr
OESystem::OEBitVector
OESystem::OEBoundedBuffer
OESystem::OEColor
OESystem::OEColorGradientBase
OESystem::OEColorStop
OESystem::OEConcatIter
OESystem::OEContainer
OESystem::OECycleTimer
OESystem::OEDots
OESystem::OEErrorHandler
OESystem::OEErrorHandlerImplBase
OESystem::OEExponentColorGradient
OESystem::OEExponentialColorGradient
OESystem::OEGaussian
OESystem::OEGaussianContainer
OESystem::OEGrid
OESystem::OEHasRole
OESystem::OEHeader
OESystem::OEInterface
OESystem::OEIter
OESystem::OEIterBase
OESystem::OELinearColorGradient
OESystem::OELogarithmicColorGradient
OESystem::OEMultiGrid
OESystem::OENot
OESystem::OEOr
OESystem::OEOwnedPtr
OESystem::OEPredIter
OESystem::OEProtectedBuffer
OESystem::OERandom
OESystem::OERole
OESystem::OERoles
OESystem::OEScalarGrid
OESystem::OESharedPtr
OESystem::OESkewGrid
OESystem::OEStopwatch
OESystem::OEThreadedDots
OESystem::OEUnboundedBuffer
OESystem::OEUnownedPtr
OESystem::OEWallTimer
OESystem::oeprogressstream
OESz::OEFreeFormConf
OESz::OEFreeFormConfAdvanced
OESz::OEFreeFormConfOptions
OESz::OEFreeFormConfResults
OESz::OEFreeFormSolvOptions
OESz::OEFreeFormSolvResults
OESz::OERestrictionEnergyResult
OESz::OESingleConfResult
OESz::OESzybki
OESz::OESzybkiEnsembleResults
OESz::OESzybkiGeneralOptions
OESz::OESzybkiOptOptions
OESz::OESzybkiOptions
OESz::OESzybkiProteinOptions
OESz::OESzybkiResults
OESz::OESzybkiSolventOptions
OESz::OETorsionScanOptions
OESz::OETorsionScanResult
OESzmap::OESzmapEngine
OESzmap::OESzmapEngineOptions
OESzmap::OESzmapResults

convert.cpp

Example Code

Copy

OESystem::OEConcatIter
OESystem::OEIter
OESystem::OEIterBase
OESystem::OEPredIter

CoreToMoleculeCount

OEMedChem::OEMCSFragDatabase

CoreToMolecules

OEMedChem::OEMCSFragDatabase

Cosine

similarity measure

Count

OEChem::OEMolBase
OESystem::OEErrorHandler
OESystem::OEErrorHandlerImplBase

CountBits

OESystem::OEBitVector

CPK

CreateComplexCopy

OEGrapheme::OEComplexSurfaceArcFxnBase

CreateCopy

OEBio::OECationPiInteractionHint
OEBio::OEChelatorInteractionHint
OEBio::OEClashInteractionHint
OEBio::OEContactInteractionHint
OEBio::OECovalentInteractionHint
OEBio::OEHBondInteractionHint
OEBio::OEHalogenBondInteractionHint
OEBio::OEHasAlternateLocation
OEBio::OEHasInteractionHint
OEBio::OEHasInteractionHintType
OEBio::OEHasPDBAtomIndex
OEBio::OEHasResidueInteractionHint
OEBio::OEHasSecondaryStructure
OEBio::OEInteractionHint
OEBio::OEInteractionHintComponentTypeBase
OEBio::OEInteractionHintFragment
OEBio::OEInteractionHintTypeBase
OEBio::OEIsAlphaCarbon
OEBio::OEIsBackboneAtom
OEBio::OEIsCationPiInteractionHint
OEBio::OEIsChelatorInteractionHint
OEBio::OEIsClashInteractionHint
OEBio::OEIsContactInteractionHint
OEBio::OEIsCovalentInteractionHint
OEBio::OEIsHBondInteractionHint
OEBio::OEIsHalogenBondInteractionHint
OEBio::OEIsInterInteractionHint
OEBio::OEIsIntermolecularChelatorInteractionHint
OEBio::OEIsIntermolecularHBondInteractionHint
OEBio::OEIsIntraInteractionHint
OEBio::OEIsIntramolecularChelatorInteractionHint
OEBio::OEIsIntramolecularHBondInteractionHint
OEBio::OEIsSaltBridgeInteractionHint
OEBio::OEIsStackingInteractionHint
OEBio::OEIsUnpairedLigandInteractionHint
OEBio::OEIsUnpairedProteinInteractionHint
OEBio::OEIsWater
OEBio::OELigandInteractionHintComponent
OEBio::OEMolComplexCategorizer
OEBio::OEMolComplexCategorizerBase
OEBio::OEMolComplexFilter
OEBio::OEProteinInteractionHintComponent
OEBio::OESaltBridgeInteractionHint
OEBio::OEStackingInteractionHint
OEChem::OEAbsCanonicalConfTest
OEChem::OEAbsoluteConfTest
OEChem::OEAtomBondSet
OEChem::OEAtomIsInAgent
OEChem::OEAtomIsInChain
OEChem::OEAtomIsInProduct
OEChem::OEAtomIsInReactant
OEChem::OEAtomIsInResidue
OEChem::OEAtomIsInRing
OEChem::OEBondIsInChain
OEChem::OEBondIsInRing
OEChem::OEConfTestBase
OEChem::OEDefaultConfTest
OEChem::OEEuler
OEChem::OEExprBase
OEChem::OEGetNbrAtom
OEChem::OEHasAlphaBetaUnsat
OEChem::OEHasAnisou
OEChem::OEHasAtomInGroup
OEChem::OEHasAtomName
OEChem::OEHasAtomStereoSpecified
OEChem::OEHasAtomicNum
OEChem::OEHasBondInGroup
OEChem::OEHasBondStereoSpecified
OEChem::OEHasChainID
OEChem::OEHasFormalCharge
OEChem::OEHasFragmentNumber
OEChem::OEHasGroupType
OEChem::OEHasHvyDegree
OEChem::OEHasIdx
OEChem::OEHasMapIdx
OEChem::OEHasOrder
OEChem::OEHasResidueNumber
OEChem::OEIdxSelected
OEChem::OEInSamePart
OEChem::OEIsAromaticAtom
OEChem::OEIsAromaticBond
OEChem::OEIsAtomHybridization
OEChem::OEIsCAlpha
OEChem::OEIsCarbon
OEChem::OEIsChiralAtom
OEChem::OEIsChiralBond
OEChem::OEIsHalide
OEChem::OEIsHalogen
OEChem::OEIsHeavy
OEChem::OEIsHetero
OEChem::OEIsHydrogen
OEChem::OEIsInvertibleNitrogen
OEChem::OEIsMDLStereoGroup
OEChem::OEIsMember
OEChem::OEIsMemberPtr
OEChem::OEIsMetal
OEChem::OEIsNitrogen
OEChem::OEIsNonRingAtomDoubleBondedToRing
OEChem::OEIsOxygen
OEChem::OEIsPhosphorus
OEChem::OEIsPolar
OEChem::OEIsPolarHydrogen
OEChem::OEIsProductGroup
OEChem::OEIsRGroup
OEChem::OEIsReactantGroup
OEChem::OEIsRotor
OEChem::OEIsRxnComponentGroup
OEChem::OEIsSulfur
OEChem::OEIsomericConfTest
OEChem::OEMCSFunc
OEChem::OEMCSMaxAtoms
OEChem::OEMCSMaxAtomsCompleteCycles
OEChem::OEMCSMaxBonds
OEChem::OEMCSMaxBondsCompleteCycles
OEChem::OEMatch
OEChem::OEMatchBase
OEChem::OEMatchFunc
OEChem::OEMolBase
OEChem::OEMolDatabase
OEChem::OENthAtom
OEChem::OEOmegaConfTest
OEChem::OEPartPredT
OEChem::OEQMolBase
OEChem::OEQuaternion
OEChem::OERotMatrix
OEChem::OESimilarByRMSD
OEChem::OETransBase
OEChem::OETranslation
OEChem::OEUnaryToBinaryAnd
OEChem::OEUnaryToBinaryOr
OEDepict::OE2DAtomDisplay
OEDepict::OE2DBondDisplay
OEDepict::OE2DMolDisplay
OEDepict::OEAlignmentResult
OEDepict::OEAtomSVGAtomIdxMarkup
OEDepict::OEAtomSVGMarkupBase
OEDepict::OEAtomSVGNoMarkup
OEDepict::OEAtomSVGResidueMarkup
OEDepict::OEDisplayAtomIdx
OEDepict::OEDisplayAtomMapIdx
OEDepict::OEDisplayAtomPropBase
OEDepict::OEDisplayBondIdx
OEDepict::OEDisplayBondPropBase
OEDepict::OEDisplayNoAtomProp
OEDepict::OEDisplayNoBondProp
OEDepict::OEHighlightBase
OEDepict::OEHighlightByBallAndStick
OEDepict::OEHighlightByCogwheel
OEDepict::OEHighlightByColor
OEDepict::OEHighlightByLasso
OEDepict::OEHighlightByStick
OEDepict::OEImageFileCreatorBase
OEDocking::OEFeature
OEGraphSim::OESimFuncBase
OEGraphSim::OETanimotoSim
OEGraphSim::OETverskySim
OEGrapheme::OEAlphaRainbowArcFxn
OEGrapheme::OEAtomGlyphBase
OEGrapheme::OEAtomGlyphCircle
OEGrapheme::OEBondGlyphArrow
OEGrapheme::OEBondGlyphBase
OEGrapheme::OEBondGlyphCircle
OEGrapheme::OEBondGlyphCross
OEGrapheme::OEBondGlyphCurvedArrow
OEGrapheme::OEBondGlyphScissors
OEGrapheme::OEBondGlyphStitch
OEGrapheme::OEBondGlyphZigZag
OEGrapheme::OEBrickRoadArcFxn
OEGrapheme::OECastleArcFxn
OEGrapheme::OECogArcFxn
OEGrapheme::OEComplexSurfaceArcFxnBase
OEGrapheme::OEDefaultArcFxn
OEGrapheme::OEDefaultBuriedArcFxn
OEGrapheme::OEDefaultCavityArcFxn
OEGrapheme::OEDefaultSolventArcFxn
OEGrapheme::OEDefaultVoidArcFxn
OEGrapheme::OEEyelashArcFxn
OEGrapheme::OEFlowerArcFxn
OEGrapheme::OENecklaceArcFxn
OEGrapheme::OENullArcFxn
OEGrapheme::OEOliveBranchArcFxn
OEGrapheme::OEPearlsArcFxn
OEGrapheme::OERaceTrackArcFxn
OEGrapheme::OERailroadTrackArcFxn
OEGrapheme::OEResidueSVGMarkupBase
OEGrapheme::OEResidueSVGNoMarkup
OEGrapheme::OEResidueSVGStandardMarkup
OEGrapheme::OESawArcFxn
OEGrapheme::OESimpsonArcFxn
OEGrapheme::OEStitchArcFxn
OEGrapheme::OESunArcFxn
OEGrapheme::OESurfaceArcFxnBase
OEGrapheme::OEWreathArcFxn
OEMedChem::OEMCSSimFuncBase
OEMedChem::OEMCSTanimotoSim
OEMedChem::OEMCSTverskySim
OEMedChem::OEMatchedPair
OEMedChem::OEMatchedPairTransform
OEMolPotential::OEFFParams
OEOpt::OELineMinimize
OEProton::OEChargeEngineBase
OEProton::OETautomerMolFunction
OEProton::OETyperMolFunction
OEShape::OEHighestColorTanimoto
OEShape::OEHighestComboScore
OEShape::OEHighestFitColorTversky
OEShape::OEHighestFitTversky
OEShape::OEHighestFitTverskyCombo
OEShape::OEHighestOverlap
OEShape::OEHighestRefColorTversky
OEShape::OEHighestRefTversky
OEShape::OEHighestRefTverskyCombo
OEShape::OEHighestScaledColor
OEShape::OEHighestTanimoto
OEShape::OEHighestTanimotoCombo
OEShape::OEHighestTverskyCombo
OEShape::OEIsColorAtomPred
OEShape::OEOverlayScoreCutoff
OEShape::OEStarts
OESpicoli::OESurface
OESystem::OEAnd
OESystem::OEAnnotation
OESystem::OEBase
OESystem::OEBaseData
OESystem::OEBaseDataT
OESystem::OEBinaryAnd
OESystem::OEBinaryFalse
OESystem::OEBinaryFunction
OESystem::OEBinaryIOHandler
OESystem::OEBinaryNot
OESystem::OEBinaryOr
OESystem::OEBinaryPredicate
OESystem::OEBinaryTrue
OESystem::OEColor
OESystem::OEContainer
OESystem::OEErrorHandlerImplBase
OESystem::OEFixedGrid
OESystem::OEFixedMultiGrid
OESystem::OEGaussian
OESystem::OEGaussianContainer
OESystem::OEGrid
OESystem::OEGridBase
OESystem::OEHasRole
OESystem::OEIsFalse
OESystem::OEIsTrue
OESystem::OEMultiGrid
OESystem::OENot
OESystem::OEOr
OESystem::OEParameter
OESystem::OERoles
OESystem::OEScalarGrid
OESystem::OESkewGrid
OESystem::OEUnaryFunction
OESystem::OEUnaryPredicate

CreateCopy()

OEDocking::OEAlignReceptorFunction

CreateGrid

OEShape::OEHermite

CreateImage

OEDepict::OEImageFileCreatorBase

CreatePredicateCopy

OESystem::OEBinaryPredicate
OESystem::OEUnaryPredicate

createquery.cpp

Example Code

createringdict.cpp

Example Code

Crystal Symmetry

Crystallographic Space Group

Crystallographic Unit Cell

CSV

csv2sdf.cpp

Example Code

cyclic membership

D

Daylight

Daylight SMILES

Debug

OESystem::OEErrorHandler

Delete

OEChem::OEConfBase
OEChem::OEMolDatabase

DeleteAtom

OEChem::OEGroupBase
OEChem::OEMolBase

DeleteBond

OEChem::OEGroupBase
OEChem::OEMolBase

DeleteColorGaussian

OEShape::OEShapeQuery

DeleteConf

OEChem::OEMCMolBase

DeleteConfs

OEChem::OEMCMolBase

DeleteData

OESystem::OEBase

DeleteFeature

OEDocking::OECustomConstraints

DeleteGaussian

OESystem::OEGaussianContainer
OESystem::OEGaussianContainerBase

DeleteGaussians

OESystem::OEGaussianContainer
OESystem::OEGaussianContainerBase

DeleteGroup

OEChem::OEMolBase

DeleteInteraction

OEBio::OEInteractionHintContainer

DeleteInterface

OESystem::OEInterface

DeleteParameter

OESystem::OEInterface

DeleteRole

OESystem::OERoleSet

DeleteShapeGaussian

OEShape::OEShapeQuery

DeleteSmarts

OEDocking::OEFeature

DeleteSphere

OEDocking::OEFeature

DeleteStop

OESystem::OEColorGradientBase

dens_omega.cpp

Example Code

depict.cpp

Example Code

depict.txt

Example Code

Describe

OEBio::OEPlaceHydrogensDetails
OEBio::OEPlaceHydrogensMoverNote

Destructor

OEDocking::OEBoxBase
OEDocking::OEDockBase
OEDocking::OEFeature
OEDocking::OEScoreBase
OEDocking::OESphereBase

Dice

similarity measure

Dihedral

DirContents

OEPlatform::OEFile

DirPath

OEPlatform::OEFile

dockmolecules.cpp

Example Code

DockMultiConformerMolecule

OEDocking::OEDock
OEDocking::OEDockBase
OEDocking::OEHybrid
OEDocking::OEPosit

dots.cpp

Example Code

downloading

DrawArc

OEDepict::OEImage
OEDepict::OEImageBase
OEDepict::OEImageFrame

DrawCircle

OEDepict::OEImage
OEDepict::OEImageBase
OEDepict::OEImageFrame

DrawCubicBezier

OEDepict::OEImage
OEDepict::OEImageBase
OEDepict::OEImageFrame

DrawLine

OEDepict::OEImage
OEDepict::OEImageBase
OEDepict::OEImageFrame

DrawPath

OEDepict::OEImage
OEDepict::OEImageBase
OEDepict::OEImageFrame

DrawPie

OEDepict::OEImage
OEDepict::OEImageBase
OEDepict::OEImageFrame

DrawPoint

OEDepict::OEImage
OEDepict::OEImageBase
OEDepict::OEImageFrame

DrawPolygon

OEDepict::OEImage
OEDepict::OEImageBase
OEDepict::OEImageFrame

DrawQuadraticBezier

OEDepict::OEImage
OEDepict::OEImageBase
OEDepict::OEImageFrame

DrawRectangle

OEDepict::OEImage
OEDepict::OEImageBase
OEDepict::OEImageFrame

DrawText

OEDepict::OEImage
OEDepict::OEImageBase
OEDepict::OEImageFrame
OEDepict::OEImageTable

DrawTriangle

OEDepict::OEImage
OEDepict::OEImageBase
OEDepict::OEImageFrame

E

Elapsed

OESystem::OECycleTimer
OESystem::OEStopwatch
OESystem::OEWallTimer

ElementToGridIdx

OESystem::OEGridBase
OESystem::OESkewGrid

ElementToSpatialCoord

OESystem::OEGridBase
OESystem::OESkewGrid

Empty

OESystem::OEBoundedBuffer
OESystem::OEUnboundedBuffer

enumeratetautomers.cpp

Example Code

environment variable

OE_DIR, [1], [2], [3]
OE_LICENSE, [1], [2], [3], [4]

eof

OEChem::oemolistream
OEPlatform::oestream

Error

OESystem::OEErrorHandler

EstimateEnergies

OESz::OEFreeFormConfAdvanced

EstimateFreeEnergies

OESz::OEFreeFormConf

EstimateRestrictionEnergy

OESz::OEFreeFormConfAdvanced

Euclidean

similarity measure

Example Code

anisou.cpp
appendringdict.cpp
assigncharges.cpp
assigncharges.txt
backbone.cpp
bemismurckoperception.cpp
besthit.cpp
bfactor2img.cpp
bfactor2img.txt
bind.cpp
bound_entropy.cpp
calc_et.cpp
cansmi.cpp
catmols.cpp
chemblsolubility.cpp
cliquealign.cpp
coloroverlap.cpp
colorscore.cpp
complex2img.cpp
complex2img.txt
convert.cpp
createquery.cpp
createringdict.cpp
csv2sdf.cpp
dens_omega.cpp
depict.cpp
depict.txt
dockmolecules.cpp
dots.cpp
enumeratetautomers.cpp
excludevolume.cpp
excludevolume.txt
extractringtemplates.cpp
extractscaffold.cpp
findsimilarconfs.cpp
flexible_protein.cpp
freeformconf.cpp
freeformconfadvanced.cpp
freeformconfadvrstr.cpp
freeformconfrstr.cpp
freeformsolv.cpp
func1_chk.cpp
func2.cpp
generate2d.cpp
gettitles.cpp
hermite-expansion.cpp
hermite-tanimoto.cpp
leadfilter.cpp
libgen.cpp
ligand_entropy.cpp
ligand_flexprotein_newton.cpp
ligand_multiple_options.cpp
makefastfp.cpp
makefastfp.txt
match2img.cpp
match2img.txt
matchedpairtransform.cpp
matchedpairtransformlist.cpp
matchedpairtransformprobe.cpp
mcs3dalign.cpp
mcsalign2d.cpp
mcsalign2d.txt
mcsfragdatabase.cpp
mdlquery2img.cpp
mdlquery2img.txt
mdlreaction2img.cpp
mdlreaction2img.txt
minpath.cpp
mmff.cpp
mmff_amber.cpp
mmff_amber_quat.cpp
mmff_complex.cpp
mmff_energy.cpp
mmff_interactions.cpp
mmff_subset.cpp
mmff_tor.cpp
mol2img.cpp
mol2img.txt
mol2nam_example.cpp
mol2nam_example.txt
molcount.cpp
molextract.cpp
molfunc1.cpp
molgrep.cpp
molpropsddata.cpp
molproptable.cpp
mols2img.cpp
mols2img.txt
mols2pdf.cpp
mols2pdf.txt
molstats.cpp
nam2mol_example.cpp
nam2mol_example.txt
neutralionization.cpp
nxnshape.cpp
oecheminfo.cpp
oemedcheminfo.cpp
overlapcolor.cpp
overlapquery.cpp
overlayallres.cpp
overlaybestres.cpp
overlaystruct.cpp
parts2mols.cpp
posemolecules.cpp
posemolswithbestreceptor.cpp
posemolswithmultireceptors.cpp
printatomnames.cpp
printinteractions.cpp
protein_ligand_pb.cpp
protein_multiple_options.cpp
proteinprep.cpp
proteinprep.txt
quietfilter.cpp
randomizeatoms.cpp
randomsample.cpp
rescore.cpp
rescoreposes.cpp
ringdict2pdf.cpp
ringdict2pdf.txt
ringsubset.cpp
rmsd.cpp
rotorcount.cpp
sdf2csv.cpp
sdfilter.cpp
sdfmodprops.cpp
sdfrename.cpp
searchfastfp.cpp
searchfastfp.txt
searchfp.cpp
searchfp.txt
secondarystructuresuperposition.cpp
setreasonablechargestate.cpp
shapeoverlap2pdf.cpp
shapeoverlap2pdf.txt
shapeprops.cpp
simple_conformer.cpp
simple_newton.cpp
simple_omega.cpp
simple_protein.cpp
simple_vacuum.cpp
simpleoverlap.cpp
simplesuperposition.cpp
single_conformer.cpp
sizefilter.cpp
smartsalign.cpp
smartsalign2d.cpp
smartsalign2d.txt
solution_entropy.cpp
specificmolprop.cpp
splitmolcomplex.cpp
splitmolcomplex.txt
splitmolcomplexfrags.cpp
splitmolcomplexfrags.txt
splitmolcomplexlowlevel.cpp
splitmolcomplexlowlevel.txt
stereo_and_torsion.cpp
stripsalts.cpp
tophits.cpp
tophitsconf.cpp
tophitsquery.cpp
transfer.cpp
translate_example.cpp
translate_example.txt
unimolrxn.cpp
uniqinchi.cpp
uniqmol.cpp
usercolor.cpp
viewmdlsearch.cpp
viewmdlsearch.txt
wibergbondorders.cpp
zap_atompot.cpp
zap_focussing.cpp
zap_forces.cpp
zap_grid1.cpp
zap_grid2.cpp
zap_grid3.cpp
zap_solv1.cpp

excludevolume.cpp

Example Code

excludevolume.txt

Example Code

Exists

OEPlatform::OEFile

explicit atom degree

explicit hydrogen count

explicit valence

Extract

OEChem::OEEuler
OEChem::OEQuaternion
OEChem::OERotMatrix
OEChem::OETrans
OEChem::OETransBase
OEChem::OETranslation

extractringtemplates.cpp

Example Code

extractscaffold.cpp

Example Code

F

Factory

OESystem::OEInterface

Fatal

OESystem::OEErrorHandler

fd

OEPlatform::oeifstream
OEPlatform::oeofstream

file formats

FileName

OEPlatform::OEFile

FindSimilarConfs

OESz::OEFreeFormConf

findsimilarconfs.cpp

Example Code

fingerprint

FirstBit

OESystem::OEBitVector

FixAtoms

OESz::OESzybki

flexible_protein.cpp

Example Code

flush

OEChem::oemolostream
OEPlatform::oeostream

formal charge, [1]

FoundInDB

OEBio::OEResidueCategoryData

freeformconf.cpp

Example Code

freeformconfadvanced.cpp

Example Code

freeformconfadvrstr.cpp

Example Code

freeformconfrstr.cpp

Example Code

freeformsolv.cpp

Example Code

FromHexString

OESystem::OEBitVector

FromIndex

OEMedChem::OEMatchedPair

FromSmiles

OEMedChem::OEMatchedPair

Full

OESystem::OEBoundedBuffer
OESystem::OEUnboundedBuffer

func1_chk.cpp

Example Code

func2.cpp

Example Code

Functor

G

g++

Gasteiger charge

gcc

generate2d.cpp

Example Code

Get

OEChem::OEVectorBindings
OEMolPotential::OEInteractParams
OESystem::OEBoundedBuffer
OESystem::OEInterface
OESystem::OEOwnedPtr
OESystem::OEProtectedBuffer
OESystem::OESharedPtr
OESystem::OEUnboundedBuffer
OESystem::OEUnownedPtr

get

OEPlatform::oeistream

Get_dc

OEConstr::OEHarmonicPotential

Get_kc

OEConstr::OEHarmonicPotential

GetA

OEBio::OECrystalSymmetryParams
OESheff::OESheffieldOptions
OESystem::OEColor

GetActive

OEChem::OEMCMolBase

GetAddCarbonSkeleton

OEChem::OE2DRingDictionaryCreatorOptions

GetAddCarbonSkeletonWithBondStereo

OEChem::OE2DRingDictionaryCreatorOptions

GetAddDepictionHydrogens

OEDepict::OEAlignmentOptions
OEDepict::OEPrepareDepictionOptions

GetAddMetadata

OEBio::OEPlaceHydrogensOptions

GetAddRGroup

OEBio::OESplitMolComplexOptions

GetAdjustHCount

OEBio::OESplitMolComplexOptions

GetAliases

OESystem::OEParameter

GetAlignment

OEDepict::OEFont

GetAllColor

OEShape::OEColorOverlap

GetAllScores

OEGraphSim::OEFastFPDatabase

GetAlpha

OEBio::OECrystalSymmetryParams
OEGraphSim::OETverskySim
OEMedChem::OEMCSTverskySim

GetAltAtoms

OEBio::OEAltLocationFactory

GetAlternateLocation

OEChem::OEResidue

GetAltsMustBeCompatible

OEBio::OEPlaceHydrogensOptions

GetAmberTerms

OEFF::OEMMFFAmberOptions

GetAminoAcidScale

OEGrapheme::OEPeptideDisplayOptions

GetAnalyticCoulombicBindingEnergy

OEPB::OEBindResults

GetAnalyticOptions

OEShape::OEAnalyticColorFunc
OEShape::OEAnalyticShapeFunc

GetAngle

OEBio::OEPlaceHydrogensMoverNote
OESz::OETorsionScanResult

GetAngles

OEChem::OEEuler

GetAntiAliasing

OEDepict::OEJavaImageBase

GetApplyWarts

OEProton::OETautomerOptions

GetArea

OEPB::OEArea

GetArg

OEPlatform::OEThread

GetAromaticStyle

OEDepict::OE2DMolDisplayOptions

GetAssignBondiRadii

OEShape::OEOverlapPrep

GetAssignColor

OEShape::OEOverlapPrep

GetAssignMapIdx

OEChem::OELibraryGen

GetAssumptions

OEBio::OESplitMolComplexOptions

GetAtom

OEBio::OEHierChain
OEBio::OEHierFragment
OEBio::OEHierResidue
OEBio::OEHierView
OEBio::OEInteractionHintFragment
OEChem::OEMolBase
OEDepict::OEAtomDisplayBase
OEDepict::OENearestAtom
OEDocking::OEProteinConstraint

GetAtomColor

OEDepict::OE2DMolDisplayOptions

GetAtomColorStyle

OEDepict::OE2DMolDisplayOptions

GetAtomDisplay

OEDepict::OE2DMolDisplay
OEGrapheme::OESurfaceArc

GetAtomDisplays

OEDepict::OE2DMolDisplay

GetAtomExternalHighlight

OEDepict::OEHighlightByColor

GetAtomExternalHighlightRatio

OEDepict::OEHighlightByStick

GetAtomicBondOrder

OEMolAM1::OEAM1Results

GetAtomicNum

OEChem::OEAtomBase

GetAtomicPotentials

OESz::OEFreeFormSolvResults

GetAtomicRadiiType

OESz::OEFreeFormSolvOptions
OESz::OESzybkiSolventOptions

GetAtomLabelFont

OEDepict::OE2DMolDisplayOptions

GetAtomLabelFontScale

OEDepict::OE2DMolDisplayOptions

GetAtomLabelMonochrome

OEDepict::OEHighlightByBallAndStick
OEDepict::OEHighlightByCogwheel
OEDepict::OEHighlightByLasso
OEDepict::OEHighlightByStick
OEDepict::OEHighlightOverlayByBallAndStick

GetAtomMapSize

OEBio::OEAltLocationFactory

GetAtomPropertyFunctor

OEDepict::OE2DMolDisplayOptions

GetAtomPropLabelFont

OEDepict::OE2DMolDisplayOptions

GetAtomPropLabelFontScale

OEDepict::OE2DMolDisplayOptions

GetAtoms

OEBio::OEHierResidue
OEBio::OEHierView
OEBio::OEInteractionHintFragment
OEChem::OEAtomBase
OEChem::OEAtomBondSet
OEChem::OEGroupBase
OEChem::OEMatch
OEChem::OEMatchBase
OEChem::OEMolBase
OEDepict::OEAlignmentResult
OEMolPotential::OEInteraction
OESpicoli::OESurface

GetAtomsElement

OESpicoli::OESurface

GetAtomStereoStyle

OEDepict::OE2DMolDisplayOptions

GetAtomSVGMarkupFunctor

OEDepict::OE2DMolDisplayOptions

GetAtomTypeIndex

OEMolPotential::OEFFParams

GetAtomTypeName

OEMolPotential::OEFFParams

GetAtomTypes

OEGraphSim::OEFPTypeParams

GetAtomVisibilityFunctor

OEDepict::OE2DMolDisplayOptions

GetAttachmentPoints

OEMedChem::OEMatchedPairTransformExtractOptions

GetAxial

OEChem::OEAtomBase

GetB

OEBio::OECrystalSymmetryParams
OESheff::OESheffieldOptions
OESystem::OEColor

GetBackboneMatch

OEBio::OESequenceAlignment

GetBackColor

OEDepict::OEPen

GetBackgroundColor

OEDepict::OE2DMolDisplayOptions

GetBadClashOverlapDistance

OEBio::OEPlaceHydrogensOptions

GetBallRadiusScale

OEDepict::OEHighlightByBallAndStick
OEDepict::OEHighlightByCogwheel
OEDepict::OEHighlightOverlayByBallAndStick

GetBaseWriteFxns

OESystem::OEBinaryIOHandler
OESystem::OEBinaryIOHandlerBase

GetBendParams

OEMolPotential::OEFFParams

GetBeta

OEBio::OECrystalSymmetryParams
OEGraphSim::OETverskySim
OEMedChem::OEMCSTverskySim

GetBFactor

OEChem::OEResidue

GetBgn

OEChem::OEBondBase
OEChem::OENbrs

GetBgnAngle

OEGrapheme::OESurfaceArc

GetBgnFragment

OEBio::OEInteractionHint

GetBgnIdx

OEChem::OEBondBase

GetBgnPen

OEDepict::OE2DBondDisplay

GetBigStep

OESystem::OEDots

GetBinaryIOHandler

OEChem::oemolstreambase

GetBinBoundaries

OEGraphSim::OEFPHistogram

GetBinCenters

OEGraphSim::OEFPHistogram

GetBindingEnergy

OEPB::OESimpleBindResults

GetBinIdx

OEGraphSim::OEFPHistogram

GetBinWidth

OEGraphSim::OEFPHistogram

GetBit

OEGraphSim::OEFPPattern

GetBodies

OEDepict::OEReport

GetBody

OEDepict::OEReport

GetBodyCell

OEDepict::OEImageTable

GetBodyCells

OEDepict::OEImageTable

GetBond

OEChem::OEAtomBase
OEChem::OEMolBase
OEDepict::OEBondDisplayBase
OEDepict::OENearestBond

GetBondColorStyle

OEDepict::OE2DMolDisplayOptions

GetBondDisplay

OEDepict::OE2DMolDisplay

GetBondDisplays

OEDepict::OE2DMolDisplay

GetBondLineAtomLabelGapScale

OEDepict::OE2DMolDisplayOptions

GetBondLineGapScale

OEDepict::OE2DMolDisplayOptions

GetBondMapSize

OEBio::OEAltLocationFactory

GetBondOrder

OEMolAM1::OEAM1Results

GetBondPropertyFunctor

OEDepict::OE2DMolDisplayOptions

GetBondPropLabelFont

OEDepict::OE2DMolDisplayOptions

GetBondPropLabelFontScale

OEDepict::OE2DMolDisplayOptions

GetBonds

OEChem::OEAtomBase
OEChem::OEAtomBondSet
OEChem::OEGroupBase
OEChem::OEMatch
OEChem::OEMatchBase
OEChem::OEMolBase
OEDepict::OEAlignmentResult

GetBondStereoStyle

OEDepict::OE2DMolDisplayOptions

GetBondTypes

OEGraphSim::OEFPTypeParams

GetBondWidthScaling

OEDepict::OE2DMolDisplayOptions

GetBoolData

OESystem::OEBase

GetBoundarySpacing

OEPB::OEZap

GetBoundingBoxPen

OEDepict::OEHighlightLabel

GetBoundLigandArea

OEPB::OESimpleBindResults

GetBoundLigandAreaEnergy

OEPB::OESimpleBindResults

GetBoundLigandCoulombEnergy

OEPB::OEBindResults

GetBoundLigandZapEnergy

OEPB::OESimpleBindResults

GetBoundProteinArea

OEPB::OESimpleBindResults

GetBoundProteinAreaEnergy

OEPB::OESimpleBindResults

GetBoundProteinCoulombEnergy

OEPB::OEBindResults

GetBoundProteinZapEnergy

OEPB::OESimpleBindResults

GetBoxRangeMax

OEGrapheme::OEColorGradientDisplayOptions

GetBoxRangeMin

OEGrapheme::OEColorGradientDisplayOptions

GetBoxRangePen

OEGrapheme::OEColorGradientDisplayOptions

GetBrief

OESystem::OEInterface
OESystem::OEParameter

getbuffer

OEPlatform::oeisstream

GetBuildForceField

OEConfGen::OEOmegaOptions

GetBundleCofactors

OEBio::OEMolComplexCategorizer
OEBio::OEMolComplexCategorizerBase

GetBuriedArea

OEPB::OESimpleBindResults

GetBuriedAreaEnergy

OEPB::OESimpleBindResults

GetBypassPredicate

OEBio::OEPlaceHydrogensOptions

getbyte

OEChem::oemolistream
OEPlatform::oeistream

GetC

OEBio::OECrystalSymmetryParams

GetCalculateFrozenTerms

OESz::OESzybkiOptOptions

GetCalculateGradients

OESz::OESzybkiGeneralOptions

GetCAlphaMatch

OEBio::OESequenceAlignment

GetCanon

OEChem::OEParseSmilesOptions

GetCanonOrder

OEConfGen::OEOmegaOptions
OEMolProp::OEFilter

GetCarbonHybridization

OEProton::OETautomerOptions

GetCarbonRadius

OEShape::OEBestOverlay
OEShape::OEOverlap
OEShape::OEShapeOptions

GetCategorizer

OEBio::OESplitMolComplexOptions

GetCavitySolventParameter

OESz::OESzybkiSolventOptions

GetCell

OEDepict::OEImageGrid
OEDepict::OEImageTable
OEDepict::OEReport

GetCellBorderPen

OEDepict::OEImageTableOptions

GetCellColor

OEDepict::OEImageTableOptions

GetCellFont

OEDepict::OEImageTableOptions

GetCellGap

OEDepict::OEImageGrid
OEDepict::OEReportOptions

GetCellHeight

OEDepict::OEImageGrid
OEDepict::OEReport
OEDepict::OEReportOptions

GetCells

OEDepict::OEImageGrid
OEDepict::OEImageTable
OEDepict::OEReport

GetCellWidth

OEDepict::OEImageGrid
OEDepict::OEReport
OEDepict::OEReportOptions

GetCenter

OEGrapheme::OESurfaceArc
OESystem::OEGaussian
OESystem::OEGaussianBase

GetChainID

OEBio::OEHierChain
OEBio::OESequenceAlignment
OEChem::OEResidue

GetChains

OEBio::OEHierView

GetCharge

OEDepict::OE2DAtomDisplay

GetCharges

OEMolAM1::OEAM1Results

GetChargeType

OESz::OEFreeFormSolvOptions
OESz::OESzybkiEnsembleResults

GetChelatorType

OEBio::OEChelatorInteractionHint

GetChi1

OEBio::OERotamer

GetChi2

OEBio::OERotamer

GetChi3

OEBio::OERotamer

GetChi4

OEBio::OERotamer

GetChildren

OESystem::OEAnnotation

GetChiral

OEChem::OEInChIOptions

GetClassName

OEDepict::OEAtomSVGAtomIdxMarkup
OEDepict::OEAtomSVGMarkupBase
OEDepict::OEAtomSVGNoMarkup
OEDepict::OEAtomSVGResidueMarkup
OEGrapheme::OEResidueSVGMarkupBase
OEGrapheme::OEResidueSVGNoMarkup
OEGrapheme::OEResidueSVGStandardMarkup

GetClearBackground

OEGrapheme::OEColorOverlapDisplayOptions
OEGrapheme::OEShapeOverlapDisplayOptions
OEGrapheme::OEShapeQueryDisplayOptions

GetClearCoordinates

OEChem::OELibraryGen
OEChem::OEUniMolecularRxn
OEProton::OETautomerOptions

GetClearCoords

OEDepict::OEAlignmentOptions
OEDepict::OEPrepareDepictionOptions
OEGrapheme::OEAlignedDepictionFrom3DOptions

GetClusterScore

OEBio::OEPlaceHydrogensDetails

GetCoefficients

OEShape::OEHermite

GetCollectProteinByChain

OEBio::OESplitMolComplexOptions

GetColor

OEDepict::OEFont
OEDepict::OEHighlightByBallAndStick
OEDepict::OEHighlightByCogwheel
OEDepict::OEHighlightByColor
OEDepict::OEHighlightByLasso
OEDepict::OEHighlightByStick
OEGrapheme::OEColorForceFieldDisplay
OESpicoli::OESurface
OESystem::OEAnnotation
OESystem::OEColorStop
OESystem::OEGaussian
OESystem::OEGaussianBase

GetColorAt

OESystem::OEColorGradientBase

GetColorAtomStyle

OEGrapheme::OEShapeQueryDisplayOptions

GetColorElement

OESpicoli::OESurface

GetColorForceField

OEShape::OEColorOptions
OEShape::OEOverlapPrep
OEShape::OEShapeQueryBase
OEShape::OEShapeQueryPublic

GetColorForceFieldType

OEFastROCS::OEShapeDatabase

GetColorFunc

OEShape::OEOverlapFunc

GetColorGaussians

OEShape::OEShapeQueryBase

GetColorGridSpacing

OEFastROCS::OEShapeDatabase

GetColorOptions

OEShape::OEColorFunc

GetColors

OEDepict::OEHighlightOverlayBase
OESystem::OEGaussianContainer
OESystem::OEGaussianContainerBase

GetColorScore

OEFastROCS::OEShapeDatabaseScore
OEShape::OEOverlapResults

GetColorStopLabelFont

OEGrapheme::OEColorGradientDisplayOptions

GetColorStopLabelFontScale

OEGrapheme::OEColorGradientDisplayOptions

GetColorStopPrecision

OEGrapheme::OEColorGradientDisplayOptions

GetColorTanimoto

OEFastROCS::OEShapeDatabaseScore
OEShape::OEOverlapResults

GetColorTversky

OEFastROCS::OEShapeDatabaseScore
OEShape::OEOverlapResults

GetColorTypes

OEGrapheme::OEColorForceFieldDisplay

GetColumnName

OEChem::OECSVHeader

GetColumnNames

OEChem::OECSVHeader

GetCombinedFilter

OEBio::OESplitMolComplexOptions

GetCommand

OESystem::OEParameter

GetCommandLine

OESystem::OEHeader

GetComment

OESystem::OEHeader

GetCommentEnergy

OEConfGen::OEOmegaOptions

GetComplexArea

OEPB::OESimpleBindResults

GetComplexAreaEnergy

OEPB::OESimpleBindResults

GetComplexCoulombEnergy

OEPB::OEBindResults

GetComplexZapEnergy

OEPB::OESimpleBindResults

GetComponent

OESzmap::OESzmapResults

GetComponentNames

OEDocking::OEDock
OEDocking::OEDockBase
OEDocking::OEHybrid
OEDocking::OEScore
OEDocking::OEScoreBase

GetComponents

OEMolPotential::OEGenericFF
OEMolPotential::OEGenericFF2

GetComponentType

OEBio::OEInteractionHintFragment

GetConf

OEChem::OEMCMolBase
OEPB::OESimpleBindResults

GetConfFreeEnergyFromEnsemble

OESz::OESzybkiResults

GetConfGenRMS

OESz::OEFreeFormSolvOptions

GetConfIdx

OEFastROCS::OEShapeDatabaseScore
OESz::OESingleConfResult
OESz::OESzybkiResults

GetConfigurationalEntropy

OESz::OESzybkiEnsembleResults

GetConfResult

OESz::OEFreeFormConfResults

GetConfs

OEChem::OEMCMolBase

GetConfsPerHit

OEShape::OEROCSOptions

GetConfTest

OEChem::oemolistream

GetConsiderAtomLabelBoundingBox

OEDepict::OEHighlightByLasso

GetContactDistance

OEMolPotential::OEFFParams

GetContext

OEMedChem::OEMatchedPairTransformExtractOptions
OESzmap::OESzmapEngine

GetCoords

OEChem::OEConfBase
OEChem::OEMolBase
OEDepict::OE2DAtomDisplay
OESystem::OEGaussianContainer
OESystem::OEGaussianContainerBase
OESzmap::OESzmapResults

GetCoordsPtr

OEChem::OEConfBase

GetCoordsToInertialFrame

OEGrapheme::OEDepictionFrom3DOptions

GetCorrSolventOptions

OESz::OEFreeFormConfOptions

GetCoulombEnergy

OEPB::OEBindResults

GetCoulombParams

OEMolPotential::OEFFParams

GetCount

OEProton::OETautomerMolFunction

GetCounts

OEFastROCS::OEDBTracer
OEGraphSim::OEFPHistogram
OESystem::OEDots

GetCPUTime

OESz::OESzybkiResults

GetCSVHeader

OEChem::oemolstreambase

GetCurrentAtoms

OEBio::OEAltLocationFactory

GetCurrentLocations

OEBio::OEAltLocationFactory

GetCurvature

OESpicoli::OESurface

GetCurvatureElement

OESpicoli::OESurface

GetCutoff

OEFastROCS::OEShapeDatabaseOptions
OEGraphSim::OEFPDatabase
OEGraphSim::OEFPDatabaseOptions

GetCutoffGT

OEFastROCS::OEShapeDatabaseOptions

GetCutoffLT

OEFastROCS::OEShapeDatabaseOptions

GetData

OESystem::OEBase
OESystem::OEBaseDataT
OESystem::OEBitVector

GetDatabaseType

OEFastROCS::OEShapeDatabase

GetDataIter

OESystem::OEBase

GetDataTags

OEMedChem::OEMatchedPair

GetDataType

OEBio::OEInteractionHint
OEBio::OEInteractionHintFragment
OEChem::OEMolDatabase
OEDepict::OE2DMolDisplay
OEDepict::OEAtomDisplayBase
OEDepict::OEBondDisplayBase
OEDepict::OEMolDisplayBase
OESpicoli::OESurface
OESystem::OEAnnotation
OESystem::OEBase
OESystem::OEBaseData
OESystem::OEBaseDataT
OESystem::OEBinaryIOHandler
OESystem::OEContainer
OESystem::OEFixedGrid
OESystem::OEFixedMultiGrid
OESystem::OEGaussian
OESystem::OEGaussianBase
OESystem::OEGaussianContainer
OESystem::OEGaussianContainerBase
OESystem::OEGrid
OESystem::OEGridAbstractBase
OESystem::OEGridBase
OESystem::OEMultiGrid
OESystem::OEScalarGrid
OESystem::OESkewGrid

GetDate

OESystem::OEHeader

GetDefault

OESystem::OETypedParameter

GetDefaultBondPen

OEDepict::OE2DMolDisplayOptions

GetDefaultReadFxn

OESystem::OEBinaryIOHandler
OESystem::OEBinaryIOHandlerBase

GetDefaults

OESystem::OETypedParameter

GetDefaultWriteFxn

OESystem::OEBinaryIOHandler
OESystem::OEBinaryIOHandlerBase

GetDegree

OEChem::OEAtomBase

GetDelta

OESz::OETorsionScanOptions

GetDeltaG

OESz::OESingleConfResult

GetDensity

OEGraphSim::OEFPHistogram

GetDepictOrientation

OEDepict::OEPrepareDepictionOptions
OEGrapheme::OEShapeQueryDisplayOptions

GetDepth

OEGrapheme::OEComplexSurfaceArcFxnBase

GetDerivativeType

OEShape::OEShapeGridOptions

GetDescendingOrder

OEGraphSim::OEFPDatabase
OEGraphSim::OEFPDatabaseOptions

GetDesolvationEnergy

OEPB::OEBindResults

GetDetail

OESystem::OEInterface
OESystem::OEParameter

GetDetails

OEBio::OEInteractionHint

GetDielectric

OEConfGen::OEOmegaOptions
OEMolMMFF::OEMMFFCoulomb
OEPB::OEET

GetDielectricDerivative

OESheff::OESheffield

GetDielectricModel

OEPB::OEZap

GetDim

OESystem::OEGridAbstractBase
OESystem::OEGridBase
OESystem::OESkewGrid

GetDimension

OEChem::OEMolBase

GetDirection

OEMedChem::OEMatchedPairTransformExtractOptions

GetDisplayedLigand

OEGrapheme::OE2DActiveSiteDisplay

GetDisplayedResidues

OEGrapheme::OE2DActiveSiteDisplay

GetDisplayPos

OEDepict::OE2DBondDisplay

GetDisplayPosition

OEDepict::OENearestAtom
OEDepict::OENearestBond
OEGrapheme::OENearestResidue

GetDisplayType

OEDepict::OE2DBondDisplay

GetDist

OEChem::OENbrs
OEDepict::OENearestAtom
OEDepict::OENearestBond
OEGrapheme::OENearestResidue
OESpruce::OESuperpositionOptions

GetDist2

OEChem::OENbrs

GetDistance

OESpicoli::OESurface

GetDistanceElement

OESpicoli::OESurface

GetDoubleData

OESystem::OEBase

GetElectrostaticSolvationFreeEnergy

OESz::OEFreeFormSolvResults

GetElement

OESystem::OEParameter

GetEnabled

OEDocking::OEFeature
OEDocking::OEProteinConstraint

GetEnd

OEChem::OEBondBase
OEChem::OENbrs
OEDepict::OE2DPath

GetEndAngle

OEGrapheme::OESurfaceArc

GetEndFragment

OEBio::OEInteractionHint

GetEndIdx

OEChem::OEBondBase

GetEndPen

OEDepict::OE2DBondDisplay

GetEnergy

OEChem::OEMolBase
OEMolAM1::OEAM1Results
OESz::OETorsionScanResult

GetEnergyRange

OEConfGen::OEOmegaOptions

GetEnergyTerm

OESz::OESzybkiResults

GetEnergyWindow

OEConfGen::OEOmegaOptions

GetEnsembleLigPartialSolvEntropy

OESz::OESzybkiEnsembleResults

GetEnsembleLigSolvEntropy

OESz::OESzybkiEnsembleResults

GetEnsembleProtDesolvEntropy

OESz::OESzybkiEnsembleResults

GetEnsembleValue

OESzmap::OESzmapResults

GetEntries

OEBio::OEResidueCategoryData

GetEntropicEnergy

OESz::OESzybkiEnsembleResults

GetEntropy

OESz::OESzybki

GetEntropy(const OEChem::OEMCMolBase&, unsigned int, unsigned int)

OESz::OESzybki

GetEnumNitrogen

OEConfGen::OEOmegaOptions

GetEnumRing

OEConfGen::OEOmegaOptions

GetEquilibriumAngle

OEMolPotential::OEFFParams

GetEquilibriumBondLength

OEMolPotential::OEFFParams

GetError

OEPB::OEZap

GetExactVdWProteinLigand

OESz::OESzybkiProteinOptions

GetExpectValidMol

OEProton::OEChargeEngineBase

GetExplicitDegree

OEChem::OEAtomBase

GetExplicitHCount

OEChem::OEAtomBase

GetExplicitHydrogens

OEChem::OELibraryGen

GetExplicitValence

OEChem::OEAtomBase

GetExponent

OEConfGen::OEOmegaOptions
OEMolMMFF::OEMMFFCoulomb
OESystem::OEExponentColorGradient

GetExpr

OEChem::OEQBase

GetExpType

OEShape::OEAnalyticOptions

GetExtend

OEBio::OESequenceAlignment

GetExtendedSaltBridgeDistance

OEBio::OEPerceiveInteractionOptions

GetExtension

OEDepict::OEImageFileBase
OEDepict::OEImageFileCreatorBase

GetFaceNormal

OESpicoli::OESurface

GetFaceNormals

OESpicoli::OESurface

GetFaceNormalsElement

OESpicoli::OESurface

GetFailed

OEChem::OEMMFFTypeResult

GetFamily

OEDepict::OEFont

GetFComponents

OEOpt::OEFunc0
OEShape::OEHermiteShapeFunc

GetFeatureName

OEDocking::OEFeature

GetFeatures

OEDocking::OECustomConstraints

GetFileName

OEChem::oemolstreambase

GetFill

OEDepict::OEPen

GetFilterType

OEMolProp::OEFilter

GetFinalRMSGradient

OESz::OESzybkiResults

GetFinalTotalPotential

OESz::OESzybkiResults

GetFingerPrints

OEGraphSim::OEFPDatabase

GetFitChains

OESpruce::OESecondaryStructureSuperposition
OESpruce::OEStructuralSuperposition

GetFitColorTversky

OEShape::OEOverlapResults

GetFitConfIdx

OEShape::OEBestOverlayScore

GetFitSelfColor

OEShape::OEOverlapResults

GetFitSelfOverlap

OEShape::OEOverlapResults

GetFitTversky

OEShape::OEColorResults
OEShape::OEOverlapResults

GetFitTverskyCombo

OEShape::OEOverlapResults

GetFixDeleteH

OEConfGen::OEOmegaOptions

GetFixedCoords

OEDepict::OEAlignmentOptions

GetFixedHLayer

OEChem::OEInChIOptions

GetFixMaxMatch

OEConfGen::OEOmegaOptions

GetFixMol

OEConfGen::OEOmegaOptions

GetFixPattern

OESz::OESzybki

GetFixPredicate

OESz::OESzybki

GetFixRMS

OEConfGen::OEOmegaOptions

GetFixSubSearch

OEConfGen::OEOmegaOptions

GetFixUniqueMatch

OEConfGen::OEOmegaOptions

GetFlagTableFailures

OEMolProp::OEFilter

GetFlavor

OEChem::OEMolDatabase
OEChem::OEMolDatabaseSaveOptions
OEChem::oemolstreambase

GetFlipBias

OEBio::OEPlaceHydrogensDetails
OEBio::OEPlaceHydrogensOptions

GetFlipBiasScale

OEBio::OEPlaceHydrogensOptions

GetFlippedBestClusterScore

OEBio::OEPlaceHydrogensMoverNote

GetFlipPredicate

OEBio::OEPlaceHydrogensOptions

GetFloatData

OESystem::OEBase

GetFocusTarget

OEPB::OEZap

GetFont

OEDepict::OEHighlightLabel

GetFontScale

OEDepict::OEHighlightLabel

GetFooter

OEDepict::OEReport

GetFooterHeight

OEDepict::OEReport
OEDepict::OEReportOptions

GetFooters

OEDepict::OEReport

GetFooterWidth

OEDepict::OEReport
OEDepict::OEReportOptions

GetForceFieldType

OESz::OESzybkiGeneralOptions
OESz::OETorsionScanOptions

GetForeColor

OEDepict::OEPen

GetFormalCharge

OEChem::OEAtomBase

GetFormat

OEChem::OEMolDatabase
OEChem::OEMolDatabaseSaveOptions
OEChem::oemolstreambase

GetFPType

OEGraphSim::OECreateFastFPDatabaseOptions
OEGraphSim::OEFPTypeBase
OEGraphSim::OEFPTypeParams

GetFPTypeBase

OEGraphSim::OEFPDatabase
OEGraphSim::OEFastFPDatabase
OEGraphSim::OEFastFPDatabaseParams
OEGraphSim::OEFingerPrint

GetFPTypeString

OEGraphSim::OEFPTypeBase

GetFPVersion

OEGraphSim::OEFPTypeBase

GetFPVersionString

OEGraphSim::OEFPTypeBase

GetFragment

OEBio::OEInteractionHint

GetFragmentationLimit

OEMedChem::OEMCSFragDatabaseOptions
OEMedChem::OEMatchedPairAnalyzerOptions

GetFragmentNumber

OEBio::OEHierFragment
OEChem::OEResidue

GetFragments

OEBio::OEHierChain
OEBio::OEHierView

GetFromCT

OEConfGen::OEOmegaOptions

GetFromSDData

OEMedChem::OEMatchedPair

GetFullConformationSearch

OEDocking::OEPositOptions

GetG

OESystem::OEColor

GetGamma

OEBio::OECrystalSymmetryParams

GetGap

OEBio::OESequenceAlignment

GetGaussians

OESystem::OEGaussianContainer
OESystem::OEGaussianContainerBase

GetGeneralOptions

OESz::OESzybkiOptions

GetGlobalOffset

OEDepict::OEImageBase

GetGlobalStrain

OESz::OERestrictionEnergyResult

GetGradients

OESz::OESzybkiResults

GetGradTolerance

OESz::OESzybkiOptOptions

GetGraphics

OEDepict::OEJavaImageBase

GetGrid

OEMolMMFF::OEMMFFInterCoulomb

GetGridBuffer

OEPB::OEET

GetGridOptions

OEShape::OEGridColorFunc
OEShape::OEGridShapeFunc

GetGridSpacing

OEPB::OEET
OEPB::OEZap
OEShape::OEOverlap
OEShape::OEShapeGridOptions

GetGroup

OEBio::OEAltLocationFactory
OEChem::OEMolBase

GetGroupCount

OEBio::OEAltGroup
OEBio::OEAltLocationFactory

GetGroupDefinition

OEChem::OEGroupBase

GetGroupID

OEBio::OEAltGroup
OEBio::OEAltLocation

GetGroupId

OEDepict::OEAtomSVGAtomIdxMarkup
OEDepict::OEAtomSVGMarkupBase
OEDepict::OEAtomSVGNoMarkup
OEDepict::OEAtomSVGResidueMarkup
OEGrapheme::OEResidueSVGMarkupBase
OEGrapheme::OEResidueSVGNoMarkup
OEGrapheme::OEResidueSVGStandardMarkup

GetGroups

OEBio::OEAltLocationFactory
OEChem::OEMolBase

GetGroupType

OEChem::OEGroupBase

Getgz

OEChem::oemolstreambase

GetHarmonicConstraints

OESz::OESzybki

GetHasDefault

OESystem::OEParameter

GetHasValue

OESystem::OEParameter

GetHBondType

OEBio::OEHBondInteractionHint

GetHCount

OEDepict::OE2DAtomDisplay

GetHeader

OEDepict::OEReport

GetHeaderCell

OEDepict::OEImageTable

GetHeaderCells

OEDepict::OEImageTable

GetHeaderColor

OEDepict::OEImageTableOptions

GetHeaderFont

OEDepict::OEImageTableOptions

GetHeaderHeight

OEDepict::OEReport
OEDepict::OEReportOptions

GetHeaders

OEDepict::OEReport

GetHeaderWidth

OEDepict::OEReport
OEDepict::OEReportOptions

GetHeight

OEDepict::OE2DMolDisplay
OEDepict::OE2DMolDisplayOptions
OEDepict::OEImage
OEDepict::OEImageBase
OEDepict::OEImageFrame
OEGrapheme::OE2DActiveSiteDisplay

GetHessianDimension

OEOpt::OEBFGSOpt

GetHighScoresAreBetter

OEDocking::OEDock
OEDocking::OEDockBase
OEDocking::OEHybrid
OEDocking::OEPosit
OEDocking::OEScore
OEDocking::OEScoreBase

GetHistogram

OEFastROCS::OEDBTracer
OEFastROCS::OEFastROCSHistogram
OEGraphSim::OEFastFPDatabase

GetHistory

OESystem::OEHeader

GetHPosition

OEDepict::OE2DAtomDisplay

GetHvyDegree

OEChem::OEAtomBase

GetHvyValence

OEChem::OEAtomBase

GetHyb

OEChem::OEAtomBase

GetHybridizationLevel

OEProton::OETautomerOptions

GetHydrogens

OEChem::OEInChIOptions

GetHydrogenStyle

OEDepict::OE2DMolDisplayOptions

GetHydrophobicSolvationFreeEnergy

OESz::OEFreeFormSolvResults

GetHyperlink

OEDepict::OEFont

GetId

OEDepict::OESVGGroup

GetIdx

OEChem::OEAtomBase
OEChem::OEBondBase
OEChem::OEConfBase
OEChem::OEMolDatabase
OEGraphSim::OESimScore
OEMedChem::OEMCSMolSimScore

GetIdxFileName

OEChem::OEMolDatabaseSaveOptions

GetIdxs

OEChem::OEMolDatabase

GetIEFFCluster

OESz::OESzybkiGeneralOptions

GetIEFFTerms

OEFF::OEMMFFIEFFOptions

GetIgnoreNitrogenStereo

OEDocking::OEPositOptions

GetIllegalRanges

OESystem::OEParameter

GetIllegalValues

OESystem::OEParameter

GetImplicitHCount

OEChem::OEAtomBase

GetIncludeInput

OEConfGen::OEOmegaOptions

GetIndexableFragmentRangeMax

OEMedChem::OEMCSFragDatabaseOptions
OEMedChem::OEMatchedPairAnalyzerOptions

GetIndexableFragmentRangeMin

OEMedChem::OEMCSFragDatabaseOptions
OEMedChem::OEMatchedPairAnalyzerOptions

GetInitialOrientation

OEFastROCS::OEShapeDatabaseOptions
OEShape::OEBestOverlay

GetInitialRMSGradient

OESz::OESzybkiResults

GetInitialTotalPotential

OESz::OESzybkiResults

GetInnerContour

OEDepict::OEHighlightByCogwheel

GetInnerDielectric

OEPB::OEET
OEPB::OEZap

GetInnerMask

OEPB::OEET

GetInsertCode

OEChem::OEResidue

GetIntData

OESystem::OEBase

GetInteractions

OEBio::OEInteractionHintContainer
OEMolPotential::OEMolFunc

GetInteractionType

OEBio::OEInteractionHint

GetInteractive

OEGrapheme::OEPeptideDisplayOptions

GetInterEnergy

OESz::OESzybkiResults

GetInterface

OESystem::OEHeader
OESystem::OEInterface

GetInterfaces

OESystem::OEInterface

GetIntermolecularVdWCutoff

OEFF::OEMMFFAmberOptions
OESz::OESzybkiProteinOptions

GetIntramolecularLigandEnergy

OESz::OESzybkiResults

GetIntramolecularVdWCutoff

OESz::OESzybkiGeneralOptions

GetIntType

OEChem::OEAtomBase
OEChem::OEBondBase

GetInvalidScore

OEDocking::OEPosit

GetInverse

OEChem::OEEuler
OEChem::OEQuaternion
OEChem::OERotMatrix
OEChem::OETrans
OEChem::OETransBase
OEChem::OETranslation

GetInverseHessian

OEOpt::OEBFGSOpt

GetIonicState

OESz::OEFreeFormConfOptions
OESz::OEFreeFormSolvOptions

GetIsList

OESystem::OEParameter

GetIsotope

OEChem::OEAtomBase

GetIsotopes

OEMedChem::OEMatchedPairTransformExtractOptions

GetIStream

OEChem::oemolithread

GetIterations

OEPB::OEZap

GetJoin

OEPB::OEET

GetKeepHessian

OEOpt::OEBFGSOpt

GetKekule

OEProton::OETautomerOptions

GetKeyless

OESystem::OEParameter

GetLabel

OEBio::OEPlaceHydrogensMoverNote
OEDepict::OE2DAtomDisplay
OEGrapheme::OEColorGradientLabel

GetLabelFont

OEDepict::OE2DAtomDisplay

GetLabels

OEGrapheme::OEColorGradientDisplayOptions

GetLabelStyle

OEGrapheme::OEPeptideDisplayOptions

GetLambdaX

OEShape::OEHermiteOptions

GetLambdaY

OEShape::OEHermiteOptions

GetLambdaZ

OEShape::OEHermiteOptions

GetLassoScale

OEDepict::OEHighlightByLasso

GetLayer

OEDepict::OE2DMolDisplay

GetLegalRanges

OESystem::OEParameter

GetLegalValues

OESystem::OEParameter

GetLegendFont

OEGrapheme::OE2DPropMap

GetLegendFontScale

OEGrapheme::OE2DPropMap

GetLegendLocation

OEGrapheme::OE2DPropMap

GetLevel

OEProton::OETautomerOptions
OESystem::OEErrorHandler
OESystem::OEErrorHandlerImplBase

GetLigandDesolvationEnergy

OEPB::OEBindResults

GetLigandFilter

OEBio::OESplitMolComplexOptions

GetLigandRMSDHeavy

OESz::OESzybkiGeneralOptions

GetLigandSubSearch

OEBio::OEMolComplexCategorizer

GetLimit

OEFastROCS::OEShapeDatabaseOptions
OEGraphSim::OEFPDatabaseOptions
OEProton::OEELFCharges

getline

OEChem::oemolistream
OEPlatform::oeistream

GetLineCap

OEDepict::OEPen

GetLineJoin

OEDepict::OEPen

GetLineStipple

OEDepict::OEPen

GetLineWidth

OEDepict::OEPen

GetLineWidthScale

OEDepict::OEHighlightByCogwheel
OEDepict::OEHighlightByColor
OEDepict::OEHighlightByLasso

GetList

OESystem::OEInterface

GetLnQrot

OESz::OESzybkiResults

GetLnQrotational

OESz::OESingleConfResult

GetLnQvib

OESz::OESzybkiResults

GetLnQvibrational

OESz::OESingleConfResult

GetLocalStrain

OESz::OERestrictionEnergyResult

GetLocation

OEBio::OEAltLocationFactory

GetLocationCodes

OEBio::OEAltLocationFactory

GetLocationCount

OEBio::OEAltGroup
OEBio::OEAltLocation

GetLocationID

OEBio::OEAltLocation

GetLocations

OEBio::OEAltGroup

GetLowestdGConfIdx

OESz::OEFreeFormConfResults

GetLowestRelEneConfIdx

OESz::OEFreeFormConfResults

GetMapIdx

OEChem::OEAtomBase

GetMargin

OEDepict::OE2DMolDisplayOptions
OEDepict::OEImageGrid
OEDepict::OEImageTableOptions

GetMarkedValuePen

OEGrapheme::OEColorGradientDisplayOptions

GetMarkedValuePrecision

OEGrapheme::OEColorGradientDisplayOptions

GetMarkedValues

OEGrapheme::OEColorGradientDisplayOptions

GetMaskCutoff

OESzmap::OESzmapEngineOptions

GetMass

OEDepict::OE2DAtomDisplay

GetMatchedPairContext

OEMedChem::OEMatchedPairTransform

GetMatchedPairData

OEMedChem::OEMatchedPairTransformExtractOptions

GetMatchedPairs

OEMedChem::OEMatchedPairTransform
OEMedChem::OEMatchedPairTransformExtractOptions

GetMax

OEGraphSim::OEFPHistogram

GetMaxAcceptorAngle

OEBio::OEPerceiveInteractionOptions

GetMaxAtomFilter

OEMedChem::OEMCSFragDatabaseOptions
OEMedChem::OEMatchedPairAnalyzerOptions

GetMaxAtomIdx

OEChem::OEMolBase

GetMaxAtomPairDistance

OEBio::OEPerceiveInteractionOptions

GetMaxBindingSiteDist

OEBio::OESplitMolComplexOptions

GetMaxBondIdx

OEChem::OEMolBase

GetMaxBondRotations

OEDepict::OEAlignmentOptions
OEGrapheme::OEAlignedDepictionFrom3DOptions
OEGrapheme::OEDepictionFrom3DOptions

GetMaxCationPiAngle

OEBio::OEPerceiveInteractionOptions

GetMaxCationPiDistance

OEBio::OEPerceiveInteractionOptions

GetMaxChargeAidedHBondDistance

OEBio::OEPerceiveInteractionOptions

GetMaxColor

OESystem::OEColorGradientBase

GetMaxConfGen

OESz::OEFreeFormSolvOptions

GetMaxConfIdx

OEChem::OEMCMolBase

GetMaxConfRange

OEConfGen::OEOmegaOptions

GetMaxConfs

OEConfGen::OEOmegaOptions
OEFastROCS::OEShapeDatabaseOptions

GetMaxContactFraction

OEBio::OEPerceiveInteractionOptions

GetMaxCoreMolecule

OEMedChem::OEMCSFragDatabase

GetMaxCoreMoleculeCount

OEMedChem::OEMCSFragDatabase

GetMaxCount

OEProton::OEFormalChargeOptions

GetMaxCovalentFraction

OEBio::OEPerceiveInteractionOptions

GetMaxDisplacement

OESz::OESzybkiResults

GetMaxDistance

OEGraphSim::OEFPTypeParams

GetMaxDonorAngle

OEBio::OEPerceiveInteractionOptions

GetMaxFragLimit

OEMedChem::OEMCSFragDatabaseOptions

GetMaxHalogenAngle

OEBio::OEPerceiveInteractionOptions

GetMaxHalogenBondDistance

OEBio::OEPerceiveInteractionOptions

GetMaxHBondDistance

OEBio::OEPerceiveInteractionOptions

GetMaxHeavyAtom

OEBio::OELigandInteractionHintComponent

GetMaxHits

OEShape::OEROCSOptions

GetMaxIter

OESz::OESzybkiOptOptions

GetMaxLigAtoms

OEBio::OEMolComplexCategorizer

GetMaxLigResidues

OEBio::OEMolComplexCategorizer

GetMaxMatches

OEChem::OECliqueSearch
OEChem::OEMCSSearch
OEChem::OESubSearch

GetMaxMetalBondDistance

OEBio::OEPerceiveInteractionOptions

GetMaxMMPLimit

OEMedChem::OEMatchedPairTransformExtractOptions

GetMaxMolIdx

OEChem::OEMolDatabase
OEMedChem::OEMCSFragDatabase

GetMaxNumDevices

OEFastROCS::OEShapeDatabase

GetMaxOptIterations

OEFastROCS::OEShapeDatabase

GetMaxOptSteps

OEShape::OEOverlayOptions

GetMaxOverlays

OEFastROCS::OEShapeDatabaseOptions

GetMaxPatternMatches

OEDepict::OEAlignmentOptions

GetMaxPeptideResidues

OEBio::OEMolComplexCategorizer

GetMaxPiStackAngle

OEBio::OEPerceiveInteractionOptions

GetMaxPiStackDistance

OEBio::OEPerceiveInteractionOptions

GetMaxProteinAtoms

OEBio::OEMolComplexCategorizer

GetMaxRandomTranslation

OEFastROCS::OEShapeDatabaseOptions
OEShape::OEBestOverlay
OEShape::OERandomStarts

GetMaxRotors

OEConfGen::OEOmegaOptions

GetMaxSaltBridgeDistance

OEBio::OEPerceiveInteractionOptions

GetMaxScfIter

OEMolAM1::OEAM1Options

GetMaxSearchTime

OEConfGen::OEOmegaOptions
OEProton::OETautomerOptions

GetMaxSeqIdx

OEBio::OESequenceAlignment

GetMaxSubstateCutoff

OEBio::OEPlaceHydrogensOptions

GetMaxSubstituentLimit

OEMedChem::OEMatchedPairTransformExtractOptions

GetMaxSubstituentLimitSkip

OEMedChem::OEMatchedPairTransformExtractOptions

GetMaxSurfaceWaterDist

OEBio::OESplitMolComplexOptions

GetMaxTautomericAtoms

OEProton::OETautomerOptions

GetMaxTautomersGenerated

OEProton::OETautomerOptions

GetMaxTStackAngle

OEBio::OEPerceiveInteractionOptions

GetMaxTStackDistance

OEBio::OEPerceiveInteractionOptions

GetMaxUnpairedAngle

OEBio::OEPerceiveInteractionOptions

GetMaxUnpairedDistance

OEBio::OEPerceiveInteractionOptions

GetMaxValue

OEGrapheme::OE2DPropMap
OESystem::OEColorGradientBase

GetMaxZoneSize

OEProton::OETautomerOptions

GetMCMol

OEChem::OEConfBase

GetMCMolBases

OEChem::oemolistream

GetMCMolTitle

OEChem::OEMCMolBase

GetMCSCore

OEMedChem::OEMCSMolSimScore

GetMCSCorrespondence

OEMedChem::OEMatchedPairTransformExtractOptions

GetMCSSimTypeString

OEMedChem::OEMCSSimFuncBase
OEMedChem::OEMCSTanimotoSim
OEMedChem::OEMCSTverskySim

GetMemoryType

OEGraphSim::OEFastFPDatabase

GetMemoryTypeString

OEGraphSim::OEFastFPDatabase

GetMethod

OEBio::OESequenceAlignment
OEPB::OEArea
OEShape::OEBestOverlay
OEShape::OEOverlap

GetMid

OESystem::OEGridAbstractBase
OESystem::OEGridBase
OESystem::OESkewGrid

GetMin

OEGraphSim::OEFPHistogram

GetMinAtoms

OEChem::OECliqueSearch
OEChem::OEMCSSearch

GetMinColor

OESystem::OEColorGradientBase

GetMinContactFraction

OEBio::OEPerceiveInteractionOptions

GetMinCovalentFraction

OEBio::OEPerceiveInteractionOptions

GetMinDistance

OEGraphSim::OEFPTypeParams

GetMinFontSize

OEDepict::OEImageBase

GetMinFragLimit

OEMedChem::OEMCSFragDatabaseOptions

GetMinHBondContactFraction

OEBio::OEPerceiveInteractionOptions

GetMinimizeType

OEShape::OEBestOverlay

GetMinLigAtoms

OEBio::OEMolComplexCategorizer

GetMinMMPLimit

OEMedChem::OEMatchedPairTransformExtractOptions

GetMinSubstituentLimit

OEMedChem::OEMatchedPairTransformExtractOptions

GetMinValue

OEGrapheme::OE2DPropMap
OESystem::OEColorGradientBase

GetMMFFEnergy

OESz::OESingleConfResult

GetMMFFTerms

OEFF::OEMMFFAmberOptions
OEFF::OEMMFFIEFFOptions

GetMMFFType

OEChem::OEMMFFTypeResult

GetMMFFTypeCheck

OEMolProp::OEFilter

GetModelNumber

OEChem::OEResidue

GetMol

OEChem::oemolthreadbase

GetMolBases

OEChem::oemolistream

GetMolDatabaseFilename

OEGraphSim::OEFastFPDatabaseParams

GetMolecule

OEBio::OEInteractionHintContainer
OEChem::OEMolDatabase
OEDepict::OEMolDisplayBase
OEMedChem::OEMatchedPairTransform
OEPB::OEZap
OEProton::OETautomerMolFunction
OEShape::OEShapeQueryBase

GetMoleculeInstance

OEMedChem::OEMatchedPairTransform

GetMolecules

OEBio::OEInteractionHintContainer

GetMoleculeString

OEChem::OEMolDatabase

GetMoleculeTitle

OEMedChem::OEMatchedPairTransform

GetMolIdx

OEFastROCS::OEShapeDatabaseScore

GetMolStream

OEChem::oemolithread
OEChem::oemolothread

GetMoverClass

OEBio::OEPlaceHydrogensMoverNote

GetMoverNotes

OEBio::OEPlaceHydrogensDetails

GetName

OEBio::OEInteractionHintComponentTypeBase
OEBio::OEInteractionHintTypeBase
OEChem::OEAtomBase
OEChem::OEResidue
OEDepict::OESVGClass
OEDocking::OEDock
OEDocking::OEDockBase
OEDocking::OEHybrid
OEDocking::OEPosit
OEDocking::OEProteinConstraint
OEDocking::OEScore
OEDocking::OEScoreBase
OEGrapheme::OEColorForceFieldDisplay
OEMolPotential::OEInteraction
OEProton::OEChargeEngineBase
OESystem::OEInterface
OESystem::OEParameter
OESystem::OERole

GetNbr

OEChem::OEBondBase

GetNbrs

OEChem::OENearestNbrs

GetNegativeColor

OEGrapheme::OE2DPropMap

GetNextMol

OEChem::oemolistream

GetNextToken

OEChem::OETokenizerBase

GetNoFlipPredicate

OEBio::OEPlaceHydrogensOptions

GetNormal

OESpicoli::OESurface

GetNormals

OESpicoli::OESurface

GetNormalsElement

OESpicoli::OESurface

GetNPolyMax

OEShape::OEHermiteOptions

GetNumBestHits

OEShape::OEROCSOptions

GetNumBins

OEFastROCS::OEDBTracer
OEFastROCS::OEDBTracerBase
OEFastROCS::OEFastROCSHistogram

GetNumBits

OEGraphSim::OEFPTypeParams

GetNumClusters

OEBio::OEPlaceHydrogensDetails

GetNumColorAtomStarts

OEFastROCS::OEShapeDatabaseOptions

GetNumColumns

OEChem::OECSVHeader

GetNumCycles

OESz::OESzybkiResults

GetNumDevices

OEFastROCS::OEShapeDatabase

GetNumericGradDelta

OEMolAM1::OEAM1Options

GetNumFixAtoms

OESz::OESzybkiResults

GetNumFlips

OEBio::OEPlaceHydrogensDetails

GetNumGrids

OESystem::OEFixedMultiGrid

GetNumHeavyAtomStarts

OEFastROCS::OEShapeDatabaseOptions

GetNumHydrogensStandardized

OEBio::OEPlaceHydrogensDetails

GetNumInertialStarts

OEFastROCS::OEShapeDatabaseOptions

GetNumMovers

OEBio::OEPlaceHydrogensDetails

GetNumOfStarts

OEShape::OEStarts

GetNumOpenThreads

OEFastROCS::OEShapeDatabase

GetNumProcessors

OEGraphSim::OECreateFastFPDatabaseOptions

GetNumRandomStarts

OEFastROCS::OEShapeDatabaseOptions
OEShape::OEBestOverlay
OEShape::OERandomStarts

GetNumRotors

OESz::OESzybkiResults

GetNumSCFCycles

OEMolAM1::OEAM1Results

GetNumStarts

OEFastROCS::OEShapeDatabaseOptions

GetNumTriangles

OESpicoli::OESurface

GetNumUniqueConfs

OESz::OEFreeFormConfResults

GetNumUserStarts

OEFastROCS::OEShapeDatabaseOptions
OEShape::OEBestOverlay

GetNumVertices

OESpicoli::OESurface

GetOccupancy

OEChem::OEResidue

GetOERelease

OESystem::OEHeader

GetOEResidue

OEBio::OEHierChain
OEBio::OEHierFragment
OEBio::OEHierResidue

GetOEVersion

OESystem::OEHeader

GetOffset

OEDepict::OEImageFrame

GetOmegaOptions

OESz::OEFreeFormConfOptions

GetOptimize

OEProton::OEAM1BCCCharges
OEProton::OEAM1Charges

GetOptimizeOptions

OESz::OEFreeFormConfOptions

GetOptimizerType

OESz::OESzybkiOptOptions

GetOptions

OEConfGen::OEOmega
OEDepict::OE2DMolDisplay
OEDepict::OEImageTable
OEDepict::OEReport
OEGrapheme::OE2DActiveSiteDisplay
OEMedChem::OEMCSFragDatabase
OEMedChem::OEMCSFragDatabaseOptions
OEMedChem::OEMatchedPairAnalyzer
OEMedChem::OEMatchedPairAnalyzerOptions
OEMedChem::OEMatchedPairTransformExtractOptions
OEMolAM1::OEAM1
OEShape::OEHermite
OESzmap::OESzmapEngine

GetOptOptions

OESz::OESzybkiOptions

GetOrder

OEChem::OEBondBase

GetOrderPriority

OESystem::OEInterface
OESystem::OEParameter

GetOrientation

OEDepict::OEMultiPageImageFile

GetOriginalBestClusterScore

OEBio::OEPlaceHydrogensMoverNote

GetOStream

OEChem::oemolothread

GetOtherFilter

OEBio::OESplitMolComplexOptions

GetOuterDielectric

OEPB::OEZap

GetOuterMask

OEPB::OEET

GetOutOfPlaneParams

OEMolPotential::OEFFParams

GetOverlap

OEShape::OEOverlapResults

GetOverlapColor

OEGrapheme::OEShapeOverlapDisplayOptions

GetOverlapDisplayStyle

OEGrapheme::OEShapeOverlapDisplayOptions

GetOverlapFunc

OEShape::OEOverlayOptions

GetOverlayConf

OEShape::OEROCSResult

GetOverlayConfs

OEShape::OEROCSResult

GetOverlayOptions

OEShape::OEMultiRefOverlay
OEShape::OEOverlay
OEShape::OEROCSOptions

GetPackedColor

OESystem::OEColor

GetPage

OEDepict::OEMultiPageImageFile
OEDepict::OEReport

GetPageHeight

OEDepict::OEMultiPageImageFile
OEDepict::OEReport
OEDepict::OEReportOptions

GetPageMargin

OEDepict::OEReportOptions

GetPages

OEDepict::OEMultiPageImageFile
OEDepict::OEReport

GetPageWidth

OEDepict::OEMultiPageImageFile
OEDepict::OEReport
OEDepict::OEReportOptions

GetParameter

OESystem::OEInterface

GetParameters

OESystem::OEInterface

GetParent

OEChem::OEAtomBase
OEChem::OEBondBase
OEChem::OEGroupBase

GetParentAtom

OEChem::OEQAtomBase

GetParentBond

OEChem::OEQBondBase

GetPartialCharge

OEChem::OEAtomBase

GetPattern

OEChem::OECliqueSearch
OEChem::OEMCSSearch
OEChem::OESubSearch

GetPatternAtoms

OEChem::OEMatchBase

GetPatternBonds

OEChem::OEMatchBase

GetPen

OEDepict::OEHighlightByLasso

GetPerceiveBondStereo

OEDepict::OEPrepareDepictionOptions

GetPercentage

OEProton::OEELFCharges

GetPerformPrep

OEShape::OEROCSOptions

GetPermissiveBCCs

OEProton::OEAM1BCCCharges

GetPhi

OEChem::OEEuler

GetpKaNormalize

OEMolProp::OEFilter

GetPlatform

OESystem::OEHeader

GetPoint

OEDepict::OE2DPathPoint

GetPoints

OEDepict::OE2DPath

GetPointType

OEDepict::OE2DPathPoint

GetPosition

OEDepict::OEHighlightByLasso

GetPositiveColor

OEGrapheme::OE2DPropMap

GetPositMethods

OEDocking::OEPositOptions

GetPotential

OESpicoli::OESurface

GetPotentialElement

OESpicoli::OESurface

GetPotentialName

OESpicoli::OESurface

GetPrefactor

OESystem::OEGaussian
OESystem::OEGaussianBase

GetPrefactors

OESystem::OEGaussianContainer
OESystem::OEGaussianContainerBase

GetPreOptimizeOptions

OESz::OEFreeFormConfOptions

GetProbabilities

OESzmap::OESzmapResults

GetProbability

OEBio::OERotamer
OESz::OESingleConfResult

GetProbabilityOrder

OESzmap::OESzmapResults

GetProbe

OESzmap::OESzmapEngineOptions

GetProbeMol

OESzmap::OESzmapEngineOptions

GetProbeName

OESzmap::OESzmapEngineOptions

GetProbeRadius

OEPB::OEZap
OESpicoli::OESurface

GetProcessorID

OEMedChem::OEMatchedPairAnalyzer

GetProcessorType

OEMedChem::OEMatchedPairAnalyzer
OEMedChem::OEMatchedPairAnalyzerOptions

GetProducts

OEChem::OELibraryGen

GetProgram

OESystem::OEHeader

GetPromoteUnknowns

OEBio::OESplitMolComplexOptions

GetProperty

OEDepict::OE2DAtomDisplay
OEDepict::OE2DBondDisplay

GetPropertyFont

OEDepict::OE2DAtomDisplay
OEDepict::OE2DBondDisplay

GetPropertyOffset

OEDepict::OE2DAtomDisplay
OEDepict::OE2DBondDisplay

GetProtein

OESz::OESzybki

GetProteinDesolvationEnergy

OEPB::OEBindResults

GetProteinDielectric

OESz::OESzybkiProteinOptions

GetProteinElectrostaticModel

OESz::OESzybkiProteinOptions

GetProteinFilter

OEBio::OESplitMolComplexOptions

GetProteinFlexibilityRange

OESz::OESzybkiProteinOptions

GetProteinFlexibilityType

OESz::OESzybkiProteinOptions

GetProteinOptions

OESz::OESzybkiOptions

GetProteinRMSD

OESz::OESzybkiResults

GetProxyGridCutoff

OEShape::OEAnalyticOptions

GetPsi

OEChem::OEEuler

GetPtr

OEChem::OEConstCoords
OEChem::OEMutableCoords

GetQAtoms

OEChem::OEQAtomBase
OEChem::OEQMol
OEChem::OEQMolBase

GetQBonds

OEChem::OEQAtomBase
OEChem::OEQMol
OEChem::OEQMolBase

GetQuat

OEFastROCS::OEShapeDatabaseScore

GetQuaternion

OEChem::OEQuaternion

GetQuerySurfaceArcFxn

OEGrapheme::OEColorOverlapDisplayOptions
OEGrapheme::OEShapeOverlapDisplayOptions

GetQuiet

OEChem::OEParseSmilesOptions

GetR

OESystem::OEColor

GetRacemicStereo

OEChem::OEInChIOptions

GetRad

OEDocking::OESphereBase

GetRadical

OEDepict::OE2DAtomDisplay

GetRadiiApproximation

OEShape::OEBestOverlay
OEShape::OEOverlap
OEShape::OEShapeOptions

GetRadius

OEChem::OEAtomBase
OEGrapheme::OESurfaceArc

GetRadiusRatio

OEGrapheme::OE2DPropMap

GetRandomSeed

OEFastROCS::OEShapeDatabaseOptions
OEShape::OEBestOverlay
OEShape::OERandomStarts

GetRangeIncrement

OEConfGen::OEOmegaOptions

GetRankPredicate

OEShape::OEROCSOptions

GetRankTautomers

OEProton::OETautomerOptions

GetRawScores

OEGraphSim::OEFastFPDatabase

GetReadFailureCt

OEChem::oemolistream

GetReadFxns

OESystem::OEBinaryIOHandler
OESystem::OEBinaryIOHandlerBase

GetReconnectedMetals

OEChem::OEInChIOptions

GetReentrant

OESystem::OESkewGrid

GetRefChains

OESpruce::OESecondaryStructureSuperposition
OESpruce::OEStructuralSuperposition

GetRefColorTversky

OEShape::OEOverlapResults

GetRefConfIdx

OEShape::OEBestOverlayScore

GetReferenceCoords

OEBio::OEPlaceHydrogensMoverNote

GetRefGrid

OEShape::OEBestOverlay

GetRefMol

OEShape::OEBestOverlay

GetRefSelfColor

OEShape::OEBestOverlay
OEShape::OEOverlapResults

GetRefSelfOverlap

OEShape::OEOverlapResults

GetRefSymmetry

OEShape::OEBestOverlay

GetRefTversky

OEShape::OEColorResults
OEShape::OEOverlapResults

GetRefTverskyCombo

OEShape::OEOverlapResults

GetRegion

OESpruce::OEStructuralSuperposition

GetRelativeEnergy

OESz::OESingleConfResult

GetRelativeStereo

OEChem::OEInChIOptions

GetRelLnQ

OESz::OESingleConfResult

GetRemoveAttractiveVdWForces

OESz::OESzybkiGeneralOptions

GetRemoveCoulombTerms

OESz::OESzybkiGeneralOptions

GetRemoveUnmappedFragments

OEChem::OELibraryGen

GetRenderHint

OESystem::OEAnnotation

GetRenderInteractiveLegend

OEGrapheme::OE2DActiveSiteDisplayOptions

GetRepairRequestedHint

OEProton::OEChargeEngineBase

GetRequired

OESystem::OEParameter

GetRequirements

OEProton::OEChargeEngineBase

GetResidue

OEBio::OEHierChain
OEBio::OEHierFragment
OEBio::OEHierView
OEGrapheme::OENearestResidue

GetResidueCategoryData

OEBio::OEMolComplexCategorizer

GetResidueIndex

OEBio::OERotamer

GetResidueName

OEBio::OEHierResidue

GetResidueNumber

OEBio::OEHierResidue
OEChem::OEResidue

GetResidues

OEBio::OEHierFragment
OEBio::OEHierView

GetResidueSVGMarkupFunctor

OEGrapheme::OE2DActiveSiteDisplayOptions

GetResolution

OEGrapheme::OE2DPropMap
OESpicoli::OESurface

GetResults

OEMolAM1::OEAM1

GetResultsForConformations

OESz::OEFreeFormConfResults
OESz::OESzybkiEnsembleResults

GetRetainBondStereo

OEChem::OEExtractRingTemplateOptions

GetRetainExistingBuiltInTemplates

OEChem::OE2DRingDictionaryCreatorOptions

GetRetainExistingTemplates

OEChem::OE2DRingDictionaryCreatorOptions
OEChem::OEExtractRingTemplateOptions

GetReturn

OEPlatform::OEThread

GetReturnCode

OESz::OEFreeFormSolvResults

GetReturnSelectedConfs

OEProton::OEELFCharges

GetRGBA

OESystem::OEColor

GetRingFragLimit

OEMedChem::OEMCSFragDatabaseOptions

GetRMSD

OEDepict::OEAlignmentResult
OESpruce::OEStructuralSuperposition
OESz::OESzybkiResults

GetRMSDCutoff

OEDepict::OEAlignmentOptions

GetRMSRange

OEConfGen::OEOmegaOptions

GetRMSThreshold

OEConfGen::OEOmegaOptions

GetROCSOptions

OEShape::OEROCS

GetRoles

OESystem::OERoleSet

GetRotateAroundBonds

OEDepict::OEAlignmentOptions

GetRotateTo2DReference

OEGrapheme::OEDepictionFrom3DOptions

GetRotationalEntropy

OESz::OESingleConfResult

GetRotationAngle

OEDepict::OEFont

GetRotEntropy

OESz::OESzybkiResults

GetRotMatrix

OEChem::OERotMatrix
OEFastROCS::OEShapeDatabaseScore
OEShape::OEBestOverlayScore
OESpruce::OESecondaryStructureSuperposition
OESpruce::OEStructuralSuperposition

GetRotorOffset

OEConfGen::OEOmegaOptions

GetRow

OEChem::OEMolDatabase

GetRunType

OESz::OESzybkiOptions

GetRxnRole

OEChem::OEAtomBase

GetSaltConcentration

OEPB::OEET
OEPB::OEZap
OESz::OESzybkiSolventOptions

GetSampleHydrogens

OEConfGen::OEOmegaOptions

GetSaveRange

OEChem::OECliqueSearch

GetSaveStereo

OEProton::OETautomerOptions

GetScale

OEDepict::OE2DMolDisplay
OEDepict::OE2DMolDisplayOptions

GetSCFTolerance

OEMolAM1::OEAM1Options

GetScore

OEBio::OEPlaceHydrogensMoverNote
OEBio::OESequenceAlignment
OEFastROCS::OEShapeDatabaseScore
OEGraphSim::OESimScore
OEMedChem::OEMCSMolSimScore
OESpruce::OEStructuralSuperposition

GetScores

OEFastROCS::OEShapeDatabase
OEGraphSim::OEFPDatabase
OEGraphSim::OEFastFPDatabase
OEMedChem::OEMCSFragDatabase
OEShape::OEBestOverlayResults

GetScoreType

OEFastROCS::OEShapeDatabaseOptions
OEShape::OEColorOptions
OEShape::OEShapeOptions

GetSDData

OEMedChem::OEMatchedPair

GetSDEnergy

OEConfGen::OEOmegaOptions

GetSDTag

OEMolProp::OEFilter

GetSearchForceField

OEConfGen::OEOmegaOptions

GetSecondaryStructure

OEChem::OEResidue

GetSeed

OESystem::OERandom

GetSelfColor

OEShape::OEColorOverlap

GetSelfOverlap

OEShape::OEHermite

GetSemiMethod

OEMolAM1::OEAM1Options

GetSeparateResidues

OEBio::OESplitMolComplexOptions

GetSequenceIdentity

OEBio::OESequenceAlignment

GetSequenceSimilarity

OEBio::OESequenceAlignment

GetSerialNumber

OEChem::OEResidue

GetSetting

OESystem::OETypedParameter

GetSettings

OESystem::OETypedParameter

GetShapeFunc

OEShape::OEOverlapFunc

GetShapeGaussians

OEShape::OEShapeQueryBase

GetShapeGrid

OEShape::OEShapeQueryBase

GetShapeGridSpacing

OEFastROCS::OEShapeDatabase

GetShapeOptions

OEShape::OEShapeFunc

GetShapeScore

OEFastROCS::OEShapeDatabaseScore

GetShapeTanimoto

OEFastROCS::OEShapeDatabaseScore

GetShapeTversky

OEFastROCS::OEShapeDatabaseScore

GetSheffieldParameters

OESz::OESzybki

GetSimFunc

OEFastROCS::OEShapeDatabaseOptions
OEFastROCS::OEShapeDatabaseScore
OEGraphSim::OEFPDatabaseOptions

GetSimTypeString

OEGraphSim::OESimFuncBase
OEGraphSim::OETanimotoSim
OEGraphSim::OETverskySim

GetSiteResidues

OESpruce::OESuperpositionOptions

GetSize

OEDepict::OEFont
OESystem::OEBaseData
OESystem::OEBaseDataT
OESystem::OEBitVector
OESystem::OEGridAbstractBase
OESystem::OEGridBase
OESystem::OESkewGrid

GetSizeLimit

OEProton::OEAM1BCCCharges
OEProton::OEAM1Charges

GetSmallStep

OESystem::OEDots

GetSMARTS

OEMedChem::OEMatchedPairTransformExtractOptions

GetSmarts

OEDocking::OEFeature
OEGraphSim::OEFPPattern

GetSoluteDielectric

OESz::OESzybkiGeneralOptions

GetSoluteDielectricConstant

OESheff::OESheffieldOptions

GetSolvationFreeEnergy

OESz::OEFreeFormSolvResults

GetSolvationType

OESz::OETorsionScanOptions

GetSolvEnergy

OESz::OESingleConfResult

GetSolventDielectric

OESz::OESzybkiSolventOptions

GetSolventDielectricConstant

OESheff::OESheffieldOptions

GetSolventModel

OESz::OESzybkiSolventOptions

GetSolventOptions

OESz::OEFreeFormConfOptions
OESz::OESzybkiOptions

GetSortedScores

OEFastROCS::OEShapeDatabase
OEGraphSim::OEFPDatabase
OEGraphSim::OEFastFPDatabase
OEMedChem::OEMCSFragDatabase

GetSourceMol

OEBio::OEAltLocationFactory

GetSpaceGroup

OEBio::OECrystalSymmetryParams
OESystem::OESkewGrid

GetSpacing

OESystem::OEGridAbstractBase
OESystem::OEGridBase
OESystem::OESkewGrid

GetSpheres

OEDocking::OEFeature

GetSplitCovalent

OEBio::OESplitMolComplexOptions

GetSplitCovalentCofactors

OEBio::OESplitMolComplexOptions

GetStackSize

OEPlatform::OEThread

GetStandardizeBondLen

OEBio::OEPlaceHydrogensOptions

GetStart

OEDepict::OE2DPath

GetStartingMaterial

OEChem::OELibraryGen

GetStarts

OEShape::OEOverlayOptions
OEShape::OEStarts

GetState

OEBio::OEAltLocationFactory

GetStateIdx

OEBio::OEPlaceHydrogensMoverNote

GetStateName

OEBio::OEPlaceHydrogensMoverNote

GetStereo

OEChem::OEAtomBase
OEChem::OEBondBase
OEChem::OEInChIOptions

GetStickWidthScale

OEDepict::OEHighlightByBallAndStick
OEDepict::OEHighlightByCogwheel
OEDepict::OEHighlightByStick
OEDepict::OEHighlightOverlayByBallAndStick

GetStippleFactor

OEDepict::OEPen

GetStops

OESystem::OEColorGradientBase

GetStretchBendParams

OEMolPotential::OEFFParams

GetStretchParams

OEMolPotential::OEFFParams

GetStrict

OEChem::OEParseSmilesOptions
OESystem::OEErrorHandler
OESystem::OEErrorHandlerImplBase

GetStrictAtomTypes

OEConfGen::OEOmegaOptions

GetStrictStereo

OEConfGen::OEOmegaOptions

GetString

OEChem::oemolostream
OEChem::oemolothread

GetStringData

OESystem::OEBase

GetStringDefault

OESystem::OEParameter

GetStringDefaults

OESystem::OEParameter

GetStringValue

OESystem::OEParameter

GetStringValues

OESystem::OEParameter

GetStubColumnCell

OEDepict::OEImageTable

GetStubColumnCells

OEDepict::OEImageTable

GetStubColumnColor

OEDepict::OEImageTableOptions

GetStubColumnFont

OEDepict::OEImageTableOptions

GetStyle

OEDepict::OEFont

GetSuperAtomLabelFont

OEDepict::OE2DMolDisplayOptions

GetSuperAtomStyle

OEDepict::OE2DMolDisplayOptions

GetSuperpositionType

OESpruce::OESuperpositionOptions

GetSuppressHydrogens

OEDepict::OEAlignmentOptions
OEDepict::OEPrepareDepictionOptions
OEGrapheme::OEAlignedDepictionFrom3DOptions
OEGrapheme::OEDepictionFrom3DOptions

GetSurfaceArcFxn

OEGrapheme::OEShapeQueryDisplayOptions

GetSVGClass

OEDepict::OEImageBase

GetSVGGroup

OEDepict::OEImageBase

GetSVGMagnifyResidueInHover

OEGrapheme::OE2DActiveSiteDisplayOptions

GetSymmetrize

OEProton::OEAM1BCCCharges
OEProton::OEAM1Charges

GetSymmetryClass

OEChem::OEAtomBase

GetSymmetryThreshold

OEShape::OEBestOverlay
OEShape::OEInertialStarts

GetSzybkiGeneralOptions

OESz::OEFreeFormConfOptions

GetTable

OEMolProp::OEFilter

GetTag

OEChem::OESDDataPair
OESystem::OEBaseData

GetTanimoto

OEShape::OEColorResults
OEShape::OEOverlapResults
OESpruce::OESecondaryStructureSuperposition

GetTanimotoCombo

OEFastROCS::OEShapeDatabaseScore
OEShape::OEOverlapResults

GetTargetAtoms

OEChem::OEMatchBase

GetTargetBonds

OEChem::OEMatchBase

GetTemperature

OESz::OEFreeFormConfResults
OESz::OESzybkiEnsembleResults
OESz::OESzybkiGeneralOptions

GetText

OEDepict::OEHighlightLabel
OESystem::OEColor

GetTheta

OEChem::OEEuler

GetTimeout

OEChem::OEInChIOptions

GetTitle

OEBio::OEInteractionHintContainer
OEChem::OEConfBase
OEChem::OEMolBase
OEChem::OEMolDatabase
OEGrapheme::OEShapeOverlapDisplay
OEGrapheme::OEShapeQueryDisplay
OEShape::OEColorForceField
OEShape::OEShapeQueryBase
OEShape::OEShapeQueryPublic
OESpicoli::OESurface
OESystem::OEAnnotation
OESystem::OEGridAbstractBase
OESystem::OEGridBase
OESystem::OESkewGrid

GetTitleFont

OEDepict::OE2DMolDisplayOptions

GetTitleFontScale

OEDepict::OE2DMolDisplayOptions

GetTitleHeight

OEDepict::OE2DMolDisplayOptions

GetTitleLocation

OEDepict::OE2DMolDisplayOptions

GetTitles

OEChem::OEMolDatabase

gettitles.cpp

Example Code

GetTitleSeparator

OEChem::OELibraryGen

gettoken

OEPlatform::oeistream

GetTorLib

OEConfGen::OEOmegaOptions

GetTorRules

OEConfGen::OETorLib

GetTorsion

OEChem::OEConfBase

GetTorsionDrive

OEConfGen::OEOmegaOptions

GetTorsionParams

OEMolPotential::OEFFParams

GetToSDData

OEMedChem::OEMatchedPair

GetTotal

OEFastROCS::OEDBTracer

GetTotalEnergy

OESz::OESingleConfResult
OESz::OESzybkiResults

GetTotalEnergyWithHarmConstraint

OESz::OESzybkiResults

GetTotalEntropy

OESz::OEFreeFormConfResults
OESz::OESzybkiEnsembleResults

GetTotalHCount

OEChem::OEAtomBase

GetTracer

OEFastROCS::OEShapeDatabaseOptions

GetTransform

OEChem::OEConfBase
OEMedChem::OEMatchedPairTransform

GetTransforms

OEChem::OETrans

GetTranslation

OEChem::OETranslation
OEFastROCS::OEShapeDatabaseScore
OEShape::OEBestOverlayScore
OESpruce::OESecondaryStructureSuperposition
OESpruce::OEStructuralSuperposition

GetTriangle

OESpicoli::OESurface

GetTriangles

OESpicoli::OESurface

GetTrianglesElement

OESpicoli::OESurface

GetTversky

OEShape::OEColorResults
OEShape::OEOverlapResults

GetTverskyAlpha

OEFastROCS::OEShapeDatabaseOptions
OEGraphSim::OEFPDatabaseOptions

GetTverskyBeta

OEFastROCS::OEShapeDatabaseOptions
OEGraphSim::OEFPDatabaseOptions

GetTverskyCombo

OEFastROCS::OEShapeDatabaseScore

GetType

OEChem::OEAtomBase
OEChem::OEBondBase
OEChem::OEExprBase
OEChem::OELingoSim
OEDocking::OEProteinConstraint
OEShape::OEColorForceField
OESystem::OEAnnotation
OESystem::OEScalarGrid
OESystem::OESkewGrid

GetTypeCheck

OEMolProp::OEFilter

GetTypedParameter

OESystem::OEInterface

GetTypeName

OEShape::OEColorForceField

GetTypes

OEShape::OEColorForceField

GetU11

OEChem::OEAnisoUij

GetU12

OEChem::OEAnisoUij

GetU13

OEChem::OEAnisoUij

GetU22

OEChem::OEAnisoUij

GetU23

OEChem::OEAnisoUij

GetU33

OEChem::OEAnisoUij

GetUnboundLigandArea

OEPB::OESimpleBindResults

GetUnboundLigandAreaEnergy

OEPB::OESimpleBindResults

GetUnboundLigandCoulombEnergy

OEPB::OEBindResults

GetUnboundLigandZapEnergy

OEPB::OESimpleBindResults

GetUnboundProteinArea

OEPB::OESimpleBindResults

GetUnboundProteinAreaEnergy

OEPB::OESimpleBindResults

GetUnboundProteinCoulombEnergy

OEPB::OEBindResults

GetUnboundProteinZapEnergy

OEPB::OESimpleBindResults

GetUnhashed

OEGraphSim::OEFPPattern

GetUnitCell

OESystem::OESkewGrid

GetUseExternalCharges

OEFF::OEMMFFAmberOptions

GetUseHydrogens

OEPB::OEArea
OEShape::OEBestOverlay
OEShape::OEOverlap
OEShape::OEOverlapPrep

GetUseInput3D

OESz::OEFreeFormSolvOptions

GetUseInputEnsemble

OESz::OEFreeFormConfOptions
OESz::OEFreeFormSolvOptions

GetUseMaxHits

OEShape::OEROCSOptions

GetUseMMFF94s

OEFF::OEMMFFAmberOptions
OEFF::OEMMFFIEFFOptions

GetUseOptimalLambdas

OEShape::OEHermiteOptions

GetUseProxyGrid

OEShape::OEAnalyticOptions

GetUserStarts

OEFastROCS::OEShapeDatabaseOptions
OEShape::OEBestOverlay

GetUseSinglePointPB

OESz::OETorsionScanOptions

GetUseSolventCorr

OESz::OEFreeFormConfOptions

GetValence

OEChem::OEAtomBase

GetValenceCorrection

OEChem::OELibraryGen

GetValidateKekule

OEChem::OELibraryGen
OEChem::OEUniMolecularRxn

GetValue

OEChem::OESDDataPair
OEGrapheme::OEColorGradientLabel
OEMolProp::OEXLogPResult
OEPlatform::OEHalfFloat
OEPlatform::OEOnce
OESystem::OEColorStop
OESystem::OETypedParameter

GetValues

OEMolPotential::OEInteraction
OESystem::OEFixedGrid
OESystem::OEFixedMultiGrid
OESystem::OESkewGrid
OESystem::OETypedParameter

GetVar

OEOpt::OEAdaptor

GetVariogram

OEGraphSim::OEFPVariogram
OEGraphSim::OEFastFPDatabase

GetVdwParams

OEMolPotential::OEFFParams

GetVdwRadius

OEMolPotential::OEFFParams

GetVerbose

OEPB::OEZap
OEProton::OEFormalChargeOptions
OESz::OESzybkiGeneralOptions

GetVersion

OEGraphSim::OEFPTypeParams
OESystem::OEHeader

GetVertex

OESpicoli::OESurface

GetVertexClique

OESpicoli::OESurface

GetVertexCliqueElement

OESpicoli::OESurface

GetVertices

OESpicoli::OESurface

GetVerticesElement

OESpicoli::OESurface

GetVibEntropy

OESz::OESzybkiResults

GetVibrationalEntropy

OESz::OESingleConfResult

GetVisibility

OESystem::OEParameter

GetWarnings

OESz::OEFreeFormSolvResults

GetWarnNoLigand

OEBio::OESplitMolComplexOptions

GetWarts

OEConfGen::OEOmegaOptions

GetWaterFilter

OEBio::OESplitMolComplexOptions

GetWaterProcessing

OEBio::OEPlaceHydrogensOptions

GetWeight

OEBio::OEInteractionHint

GetWidth

OEDepict::OE2DMolDisplay
OEDepict::OE2DMolDisplayOptions
OEDepict::OEImage
OEDepict::OEImageBase
OEDepict::OEImageFrame
OEGrapheme::OE2DActiveSiteDisplay
OESystem::OEGaussian
OESystem::OEGaussianBase

GetWidths

OESystem::OEGaussianContainer
OESystem::OEGaussianContainerBase

GetWriteFxns

OESystem::OEBinaryIOHandler
OESystem::OEBinaryIOHandlerBase

GetWriteIdx

OEChem::OEMolDatabaseSaveOptions

GetX

OEDepict::OE2DPoint
OEDocking::OESphereBase
OESystem::OEGaussian
OESystem::OEGaussianBase
OESystem::OEGridBase

GetXDim

OESystem::OEGridAbstractBase
OESystem::OEGridBase
OESystem::OESkewGrid

GetXIdx

OESystem::OEGridBase

GetXInc

OESystem::OEGridBase

GetXMax

OEDocking::OEBox
OEDocking::OEBoxBase
OESystem::OEGridBase

GetXMid

OESystem::OEGridAbstractBase
OESystem::OEGridBase
OESystem::OESkewGrid

GetXMin

OEDocking::OEBox
OEDocking::OEBoxBase
OESystem::OEGridBase

GetY

OEDepict::OE2DPoint
OEDocking::OESphereBase
OESystem::OEGaussian
OESystem::OEGaussianBase
OESystem::OEGridBase

GetYDim

OESystem::OEGridAbstractBase
OESystem::OEGridBase
OESystem::OESkewGrid

GetYIdx

OESystem::OEGridBase

GetYInc

OESystem::OEGridBase

GetYMax

OEDocking::OEBox
OEDocking::OEBoxBase
OESystem::OEGridBase

GetYMid

OESystem::OEGridAbstractBase
OESystem::OEGridBase
OESystem::OESkewGrid

GetYMin

OEDocking::OEBox
OEDocking::OEBoxBase
OESystem::OEGridBase

GetZ

OEDocking::OESphereBase
OESystem::OEGaussian
OESystem::OEGaussianBase
OESystem::OEGridBase

GetZap

OEPB::OEBind

GetZapEnergy

OEPB::OESimpleBindResults

GetZDim

OESystem::OEGridAbstractBase
OESystem::OEGridBase
OESystem::OESkewGrid

GetZIdx

OESystem::OEGridBase

GetZInc

OESystem::OEGridBase

GetZMax

OEDocking::OEBox
OEDocking::OEBoxBase
OESystem::OEGridBase

GetZMid

OESystem::OEGridAbstractBase
OESystem::OEGridBase
OESystem::OESkewGrid

GetZMin

OEDocking::OEBox
OEDocking::OEBoxBase
OESystem::OEGridBase

GetZValue

OEBio::OECrystalSymmetryParams

GONNET

GRASP

GridIdxToElement

OESystem::OEGridBase

GridIdxToSpatialCoord

OESystem::OEGridBase

H

Has

OESystem::OEInterface

HasAlphaBetaUnsat

OEChem::OEAtomBase

HasAtom

OEBio::OEInteractionHintFragment
OEChem::OEAtomBondSet
OEChem::OEGroupBase

HasBadClash

OEBio::OEPlaceHydrogensMoverNote

HasBond

OEChem::OEAtomBondSet
OEChem::OEGroupBase

HasColor

OEShape::OEShapeQueryBase

HasCompareMols

OEChem::OEConfTestBase
OEChem::OEDefaultConfTest

HasCutoff

OEFastROCS::OEShapeDatabaseOptions
OEGraphSim::OEFPDatabase
OEGraphSim::OEFPDatabaseOptions
OEShape::OEROCSOptions

HasCutoffGT

OEFastROCS::OEShapeDatabaseOptions

HasCutoffLT

OEFastROCS::OEShapeDatabaseOptions

HasData

OESystem::OEBase

HasEntropy

OESz::OESzybkiEnsembleResults

HasFlexibleResidues

OESz::OESzybkiProteinOptions

HasFlippedBadClusterClash

OEBio::OEPlaceHydrogensMoverNote

HasHeader

OEDepict::OEImageTableOptions

HasHyperlink

OEDepict::OEFont

HasIndexableFragmentHeavyAtomRange

OEMedChem::OEMCSFragDatabaseOptions
OEMedChem::OEMatchedPairAnalyzerOptions

HasInteraction

OEBio::OEInteractionHintContainer

HasLabel

OEDepict::OE2DAtomDisplay

HasMatchedPair

OEMedChem::OEMatchedPairTransform

HasMolecule

OEShape::OEShapeQueryBase

HasNextMol

OEChem::oemolistream

HasOriginalBadClusterClash

OEBio::OEPlaceHydrogensMoverNote

HasPerceived

OEChem::OEMolBase

HasProperty

OEDepict::OE2DAtomDisplay
OEDepict::OE2DBondDisplay

HasRole

OESystem::OERoleSet

HasSDData

OEMedChem::OEMatchedPair

HasShape

OEShape::OEShapeQueryBase

HasShapeGrid

OEShape::OEShapeQueryBase

HasSpaceGroup

OESystem::OESkewGrid

HasStereoSpecified

OEChem::OEAtomBase
OEChem::OEBondBase

HasStubColumn

OEDepict::OEImageTableOptions

HasTitle

OEChem::OEConfBase

HasUnitCell

OESystem::OESkewGrid

HBonds OEPlaceHydrogens

Helix

hermite-expansion.cpp

Example Code

hermite-tanimoto.cpp

Example Code

Hierarchical View

I

IdentifyConformer

OESz::OEFreeFormConfAdvanced

implicit hydrogens

InChI

InChIKey

IncrementCount

OESystem::OEErrorHandlerImplBase

IncrementReadFailureCt

OEChem::oemolistream

Info

OESystem::OEErrorHandler

Init

OEChem::OECliqueSearch
OEChem::OELibraryGen
OEChem::OELingoSim
OEChem::OEMCSSearch
OEChem::OESubSearch
OEChem::OEUniMolecularRxn
OEShape::OEColorForceField

Initialize

OEDocking::OEDock
OEDocking::OEDockBase
OEDocking::OEHybrid
OEDocking::OEPosit
OEDocking::OEScore
OEDocking::OEScoreBase

installation

integer atom type

integer bond type

Invert

OEMedChem::OEMatchedPairTransform

IsActiveTerm

OESz::OESzybkiResults

IsAromatic

OEChem::OEAtomBase
OEChem::OEBondBase

IsAtomsSet

OESpicoli::OESurface

IsBitOn

OESystem::OEBitVector

IsBodyPage

OEDepict::OEReport

IsCarbon

OEChem::OEAtomBase

IsCharged

OEBio::OEHBondInteractionHint

IsChiral

OEChem::OEAtomBase
OEChem::OEBondBase

IsClosed

OEDepict::OE2DPath

IsColorSet

OESpicoli::OESurface

IsConnected

OEChem::OEAtomBase

IsConverged

OEMolAM1::OEAM1Results

IsCurvatureSet

OESpicoli::OESurface

IsDataType

OEBio::OEInteractionHint
OEBio::OEInteractionHintFragment
OEChem::OEAtomBase
OEChem::OEBondBase
OEChem::OEMolBase
OEChem::OEMolDatabase
OEChem::OEQAtomBase
OEChem::OEQBondBase
OEChem::OEQMolBase
OEDepict::OE2DMolDisplay
OEDepict::OEAtomDisplayBase
OEDepict::OEBondDisplayBase
OEDepict::OEMolDisplayBase
OESpicoli::OESurface
OESystem::OEAnnotation
OESystem::OEBase
OESystem::OEBinaryIOHandler
OESystem::OEContainer
OESystem::OEFixedGrid
OESystem::OEFixedMultiGrid
OESystem::OEGaussian
OESystem::OEGaussianBase
OESystem::OEGaussianContainer
OESystem::OEGaussianContainerBase
OESystem::OEGrid
OESystem::OEGridAbstractBase
OESystem::OEGridBase
OESystem::OEMultiGrid
OESystem::OEScalarGrid
OESystem::OESkewGrid

IsDeleted

OEChem::OEAtomBase
OEChem::OEBondBase
OEChem::OEConfBase
OEChem::OEGroupBase
OEChem::OEMCMolBase
OEChem::OEMolBase
OEChem::OEMolDatabase

IsDirectory

OEPlatform::OEFile

IsDistanceSet

OESpicoli::OESurface

IsEmpty

OEChem::OEAtomBondSet
OEChem::OEGroupBase
OEDepict::OEImage
OEShape::OEShapeQueryBase
OESystem::OEBitVector
OESystem::OEColorGradientBase

IsEquivalent

OEChem::OEExprBase

IsExecutable

OEPlatform::OEFile

IsFaceNormalsSet

OESpicoli::OESurface

IsFile

OEPlatform::OEFile

IsFlippable

OEBio::OEPlaceHydrogensMoverNote

IsFlipped

OEBio::OEPlaceHydrogensMoverNote

IsFocusTargetSet

OEPB::OEZap

IsGridPage

OEDepict::OEReport

IsHalogen

OEChem::OEAtomBase

IsHetAtom

OEChem::OEResidue

IsHydrogen

OEChem::OEAtomBase

IsIndexed

OEMedChem::OEMCSFragDatabase
OEMedChem::OEMatchedPairAnalyzer
OEMedChem::OEMatchedPairTransform

IsInGrid

OESystem::OEGridBase

IsInitialized

OEDocking::OEDock
OEDocking::OEDockBase
OEDocking::OEHybrid
OEDocking::OEPosit
OEDocking::OEScore
OEDocking::OEScoreBase

IsInLittleEndian

OEGraphSim::OEFastFPDatabaseParams

IsInRing

OEChem::OEAtomBase
OEChem::OEBondBase

IsInter

OEBio::OEInteractionHint

IsIntra

OEBio::OEInteractionHint

IsIonizable

OEBio::OEPlaceHydrogensMoverNote

IsIonized

OEBio::OEPlaceHydrogensMoverNote

IsLegalString

OESystem::OEParameter

IsLink

OEPlatform::OEFile

IsMetal

OEChem::OEAtomBase

IsMultiPage

OEDepict::OEImageFileCreatorBase

IsNitrogen

OEChem::OEAtomBase

IsNormalsSet

OESpicoli::OESurface

isotopic mass

IsOxygen

OEChem::OEAtomBase

IsPhosphorus

OEChem::OEAtomBase

IsPolar

OEChem::OEAtomBase

IsPolarHydrogen

OEChem::OEAtomBase

IsPotentialSet

OESpicoli::OESurface

IsReadable

OEPlatform::OEFile

IsRedundant

OEMolPotential::OEQuatAdaptor

IsRegular

OESystem::OESkewGrid

IsRestrained

OEBio::OEPlaceHydrogensMoverNote

IsRotor

OEChem::OEBondBase

IsRxn

OEChem::OEMolBase

IsSet

OESystem::OEParameter

IsSetToString

OESystem::OEParameter

IsSingleton

OEBio::OEPlaceHydrogensDetails

IsSpacingSet

OESystem::OEGridAbstractBase
OESystem::OEGridBase
OESystem::OESkewGrid

IsSulfur

OEChem::OEAtomBase

IsTitleSet

OESystem::OEGridBase
OESystem::OESkewGrid

IsUnique

OESz::OESzybkiResults

IsValid

OEBio::OECationPiInteractionHint
OEBio::OEChelatorInteractionHint
OEBio::OEClashInteractionHint
OEBio::OEContactInteractionHint
OEBio::OECovalentInteractionHint
OEBio::OEHBondInteractionHint
OEBio::OEHalogenBondInteractionHint
OEBio::OEInteractionHint
OEBio::OEInteractionHintComponentTypeBase
OEBio::OEInteractionHintContainer
OEBio::OEInteractionHintTypeBase
OEBio::OELigandInteractionHintComponent
OEBio::OEPlaceHydrogensDetails
OEBio::OEProteinInteractionHintComponent
OEBio::OESaltBridgeInteractionHint
OEBio::OEStackingInteractionHint
OEChem::OECSVHeader
OEChem::OELingoSim
OEChem::OEMatchBase
OEDepict::OE2DMolDisplay
OEDepict::OE2DPath
OEDepict::OEAlignmentResult
OEDepict::OENearestAtom
OEDepict::OENearestBond
OEGraphSim::OEFPTypeParams
OEGraphSim::OEFastFPDatabase
OEGraphSim::OEFastFPDatabaseParams
OEGrapheme::OE2DActiveSiteDisplay
OEGrapheme::OENearestResidue
OEGrapheme::OEShapeOverlapDisplay
OEGrapheme::OEShapeQueryDisplay
OEProton::OEChargeEngineBase

IsValid()

OEMolProp::OEXLogPResult

IsVertexCliqueSet

OESpicoli::OESurface

IsVisible

OEDepict::OEAtomDisplayBase
OEDepict::OEBondDisplayBase
OEDepict::OEImageFileBase
OEDepict::OESVGGroup

IsWritable

OEPlatform::OEFile

IsXMidSet

OESystem::OEGridBase

IsYMidSet

OESystem::OEGridBase

IsZMidSet

OESystem::OEGridBase

itf interface definition specification

J

Join

OEPlatform::OEThread

K

Kekule form
Kekule SMILES

kekulization

L

Lap

OESystem::OECycleTimer
OESystem::OEStopwatch
OESystem::OEWallTimer

LastBit

OESystem::OEBitVector

leadfilter.cpp

Example Code

length

OEPlatform::oestream

libgen.cpp

Example Code

licensing

ligand_entropy.cpp

Example Code

ligand_flexprotein_newton.cpp

Example Code

ligand_multiple_options.cpp

Example Code

LINGO, [1]

Linux

Load

OESystem::OEParameter

LoadDefault

OESystem::OEParameter

LoadPotentialGrid

OESz::OESzybki

LoadValue

OESystem::OEParameter

M

MACCS

make

MakeAltMol

OEBio::OEAltLocationFactory

MakeCurrentAltMol

OEBio::OEAltLocationFactory

makefastfp.cpp

Example Code

makefastfp.txt

Example Code

Makefile

MakePrimaryAltMol

OEBio::OEAltLocationFactory

Manhattan

similarity measure

marching cubes

Match

OEChem::OECliqueSearch
OEChem::OEMCSSearch
OEChem::OESubSearch

match2img.cpp

Example Code

match2img.txt

Example Code

matchedpairtransform.cpp

Example Code

matchedpairtransformlist.cpp

Example Code

matchedpairtransformprobe.cpp

Example Code

maximum atom index

maximum bond index

maximum common substructure search

MCMol

OEChem::OEMol

mcs3dalign.cpp

Example Code

mcsalign2d.cpp

Example Code

mcsalign2d.txt

Example Code

mcsfragdatabase.cpp

Example Code

MCSS

MDL query

mdlquery2img.cpp

Example Code

mdlquery2img.txt

Example Code

mdlreaction2img.cpp

Example Code

mdlreaction2img.txt

Example Code

Mean

OEGraphSim::OEFPHistogram

MeetsCutoff

OEShape::OEROCSOptions

minpath.cpp

Example Code

mmff.cpp

Example Code

mmff_amber.cpp

Example Code

mmff_amber_quat.cpp

Example Code

mmff_complex.cpp

Example Code

mmff_energy.cpp

Example Code

mmff_interactions.cpp

Example Code

mmff_subset.cpp

Example Code

mmff_tor.cpp

Example Code

ModifyOptions

OEMedChem::OEMatchedPairAnalyzer
OEMedChem::OEMatchedPairAnalyzerOptions

mol2img.cpp

Example Code

mol2img.txt

Example Code

mol2nam_example.cpp

Example Code

mol2nam_example.txt

Example Code

molcount.cpp

Example Code

molecule dimension

molecule energy

molecule title, [1]

MoleculeToCores

OEMedChem::OEMCSFragDatabase

molextract.cpp

Example Code

molfunc1.cpp

Example Code

molgrep.cpp

Example Code

molpropsddata.cpp

Example Code

molproptable.cpp

Example Code

mols2img.cpp

Example Code

mols2img.txt

Example Code

mols2pdf.cpp

Example Code

mols2pdf.txt

Example Code

molstats.cpp

Example Code

Msg

OESystem::OEErrorHandler
OESystem::OEErrorHandlerImplBase

N

nam2mol_example.cpp

Example Code

nam2mol_example.txt

Example Code

NegateBits

OESystem::OEBitVector

neutralionization.cpp

Example Code

NewAtom

OEChem::OEMolBase

NewBody

OEDepict::OEReport

NewBond

OEChem::OEMolBase

NewCell

OEDepict::OEReport

NewConf

OEChem::OEMCMolBase

NewGroup

OEChem::OEMolBase

NewPage

OEDepict::OEMultiPageImageFile

NewSVGClass

OEDepict::OEImageBase

NewSVGGroup

OEDepict::OEImageBase

Next

OEPlatform::OEDirectoryScan

NextBit

OESystem::OEBitVector

NextFloat

OESystem::OERandom

NextInt

OESystem::OERandom

non-terminal atom

Null

OESystem::OEProtectedBuffer

NumAtoms

OEBio::OEInteractionHintFragment
OEChem::OEAtomBondSet
OEChem::OEGroupBase
OEChem::OEMatch
OEChem::OEMatchBase
OEChem::OEMolBase
OEDepict::OEAlignmentResult
OEMolPotential::OEInteraction

number of atoms

number of bonds

NumBins

OEGraphSim::OEFPHistogram

NumBodyPages

OEDepict::OEReport

NumBonds

OEChem::OEAtomBondSet
OEChem::OEGroupBase
OEChem::OEMatch
OEChem::OEMatchBase
OEChem::OEMolBase
OEDepict::OEAlignmentResult

NumColorTypes

OEGrapheme::OEColorForceFieldDisplay

NumCols

OEDepict::OEImageGrid
OEGrapheme::OE2DActiveSiteLegendDisplayOptions
OEGrapheme::OEColorForceFieldLegendDisplayOptions

NumColsPerPage

OEDepict::OEReport
OEDepict::OEReportOptions

NumColumns

OEDepict::OEImageTable
OEDepict::OEImageTableOptions

NumConfs

OEChem::OEMCMolBase
OEFastROCS::OEShapeDatabase
OESz::OESzybkiEnsembleResults

NumDataTags

OEMedChem::OEMatchedPair

NumFeatures

OEDocking::OECustomConstraints

NumFingerPrints

OEGraphSim::OEFPDatabase
OEGraphSim::OEFastFPDatabase
OEGraphSim::OEFastFPDatabaseParams

NumFragments

OEBio::OEInteractionHintContainer
OEMedChem::OEMCSFragDatabase

NumGaussians

OESystem::OEGaussianContainer
OESystem::OEGaussianContainerBase

NumGridPages

OEDepict::OEReport

NumGroups

OEChem::OEMolBase

NumIndexNodes

OEMedChem::OEMatchedPairAnalyzer

NumInteractions

OEBio::OEInteractionHintContainer

NumMatchedPairs

OEMedChem::OEMatchedPairAnalyzer
OEMedChem::OEMatchedPairTransform

NumMolecules

OEBio::OEInteractionHintContainer

NumMols

OEChem::OEMolDatabase
OEMedChem::OEMCSFragDatabase
OEMedChem::OEMatchedPairAnalyzer

NumOrientations

OESzmap::OESzmapEngineOptions
OESzmap::OESzmapResults

NumPages

OEDepict::OEMultiPageImageFile
OEDepict::OEReport

NumReactants

OEChem::OELibraryGen

NumRings

OEChem::OE2DRingDictionary

NumRoles

OESystem::OERoleSet

NumRows

OEDepict::OEImageGrid
OEDepict::OEImageTable
OEDepict::OEImageTableOptions
OEGrapheme::OE2DActiveSiteLegendDisplayOptions
OEGrapheme::OEColorForceFieldLegendDisplayOptions

NumRowsPerPage

OEDepict::OEReport
OEDepict::OEReportOptions

NumSamples

OEGraphSim::OEFPHistogram

NumSmarts

OEDocking::OEFeature

NumSpheres

OEDocking::OEFeature

NumStops

OESystem::OEColorGradientBase

NumValues

OEMolPotential::OEInteraction

NumVar

OEOpt::OEFunc0
OEShape::OEHermiteShapeFunc

nxnshape.cpp

Example Code

O

OE_DIR, [1], [2], [3]

OE_LICENSE, [1], [2], [3], [4]

OEAddExplicitHydrogens

OEAltGroup

OEAltLocation

OEAltLocationFactory

OEAssignAromaticFlags

OEAtomBase

OEAtomIdxSelected

OEBio::OEAltGroup

Constructors
GetGroupCount
GetGroupID
GetLocationCount
GetLocations
SetGroupID
operator bool
operator=

OEBio::OEAltLocation

Constructors
GetGroupID
GetLocationCount
GetLocationID
SetLocationID
operator bool
operator=

OEBio::OEAltLocationFactory

Constructors
GetAltAtoms
GetAtomMapSize
GetBondMapSize
GetCurrentAtoms
GetCurrentLocations
GetGroup
GetGroupCount
GetGroups
GetLocation
GetLocationCodes
GetSourceMol
GetState
MakeAltMol
MakeCurrentAltMol
MakePrimaryAltMol
SetAlt
SetPrimaryAlt
SetState
operator=

OEBio::OEAltLocationState

Constructors
ToHexString
operator bool
operator=

OEBio::OEAltLocFactOption

OEBio::OEAltLocFactOption::None

OEBio::OEAltLocFactOption::TrustInputBonds

OEBio::OEAssumption

OEBio::OEAssumption::BondedResidue

OEBio::OEAssumption::Default

OEBio::OEAssumption::None

OEBio::OEAssumption::PDBOrder

OEBio::OEAssumption::ResPerceived

OEBio::OEBuildUnitCell

OEBio::OECationPiInteractionHint

Constructors
CreateCopy
IsValid
operator=

OEBio::OECationPiInteractionHintType

OEBio::OECationPiInteractionHintType::LigandCation

OEBio::OECationPiInteractionHintType::LigandPi

OEBio::OECationPiInteractionHintType::ProteinCation

OEBio::OECationPiInteractionHintType::ProteinPi

OEBio::OEChelatorInteractionHint

Constructors
CreateCopy
GetChelatorType
IsValid
operator=

OEBio::OEChelatorInteractionHintType

OEBio::OEChelatorInteractionHintType::IntramolecularProtein

OEBio::OEChelatorInteractionHintType::LigandChelates

OEBio::OEChelatorInteractionHintType::ProteinChelates

OEBio::OEClashInteractionHint

Constructors
CreateCopy
IsValid
operator=

OEBio::OEClearMolComplexSDData

OEBio::OEClearPlaceHydrogensMetadata

OEBio::OECombineMolComplexFragments

OEBio::OEConfigureSplitMolComplexOptions

OEBio::OEContactInteractionHint

Constructors
CreateCopy
IsValid
operator=

OEBio::OECopyCrystalSymmetry

OEBio::OECountMolComplexSites

OEBio::OECovalentInteractionHint

Constructors
CreateCopy
IsValid
operator=

OEBio::OECrystalSymmetryParams

Constructors
GetA
GetAlpha
GetB
GetBeta
GetC
GetGamma
GetSpaceGroup
GetZValue
SetA
SetAlpha
SetB
SetBeta
SetC
SetGamma
SetSpaceGroup
SetZValue

OEBio::OEExpandCrystalSymmetry

OEBio::OEFilterMolComplexFragments

OEBio::OEGetActiveSiteInteractionHintTypes

OEBio::OEGetAlignment

OEBio::OEGetAlignmentMethodName

OEBio::OEGetAlignments

OEBio::OEGetChis

OEBio::OEGetCrystalSymmetry

OEBio::OEGetInteractions

OEBio::OEGetMolComplexComponents

OEBio::OEGetMolComplexFilterCategoryName

OEBio::OEGetMolComplexFragments

OEBio::OEGetPhi

OEBio::OEGetPlaceHydrogensMetadata

OEBio::OEGetPlaceHydrogensMoverClassName

OEBio::OEGetProteinTorsionName

OEBio::OEGetPsi

OEBio::OEGetResidueAtoms

OEBio::OEGetResidueDatabaseCategoryName

OEBio::OEGetResidues

OEBio::OEGetRotamers

OEBio::OEGetSecondaryStructureID

OEBio::OEGetSecondaryStructureName

OEBio::OEGetSecondaryStructureStrandID

OEBio::OEGetSecondaryStructureType

OEBio::OEGetSimpleAlignment

OEBio::OEGetSpaceGroup

OEBio::OEGetSpaceGroupNumber

OEBio::OEGetTorsion

OEBio::OEHalogenBondInteractionHint

Constructors
CreateCopy
IsValid
operator=

OEBio::OEHalogenBondInteractionHintType

OEBio::OEHalogenBondInteractionHintType::LigandElectrophile

OEBio::OEHalogenBondInteractionHintType::LigandNucleophile

OEBio::OEHalogenBondInteractionHintType::ProteinElectrophile

OEBio::OEHalogenBondInteractionHintType::ProteinNucleophile

OEBio::OEHasAlternateLocation

Constructors
CreateCopy
operator()

OEBio::OEHasBondedResidues

OEBio::OEHasCrystalSymmetry

OEBio::OEHasInteractionHint

Constructors
CreateCopy
operator()
operator=

OEBio::OEHasInteractionHintType

Constructors
CreateCopy
operator()
operator=

OEBio::OEHasPDBAtomIndex

Constructors
CreateCopy
operator()

OEBio::OEHasPlaceHydrogensMetadata

OEBio::OEHasResidueInteractionHint

Constructors
CreateCopy
operator()
operator=

OEBio::OEHasSecondaryStructure

Constructors
CreateCopy
operator()

OEBio::OEHBondInteractionHint

Constructors
CreateCopy
GetHBondType
IsCharged
IsValid
operator=

OEBio::OEHBondInteractionHintType

OEBio::OEHBondInteractionHintType::Clash

OEBio::OEHBondInteractionHintType::ClashAcceptorAcceptor

OEBio::OEHBondInteractionHintType::ClashDonorDonor

OEBio::OEHBondInteractionHintType::IntramolecularLigand

OEBio::OEHBondInteractionHintType::IntramolecularProtein

OEBio::OEHBondInteractionHintType::LigandAccepts

OEBio::OEHBondInteractionHintType::LigandDonates

OEBio::OEHBondInteractionHintType::ProteinAccepts

OEBio::OEHBondInteractionHintType::ProteinDonates

OEBio::OEHBondInteractionHintType::UnpairedLigandAcceptor

OEBio::OEHBondInteractionHintType::UnpairedLigandDonor

OEBio::OEHBondInteractionHintType::UnpairedProteinAcceptor

OEBio::OEHBondInteractionHintType::UnpairedProteinDonor

OEBio::OEHierChain

Constructors
GetAtom
GetChainID
GetFragments
GetOEResidue
GetResidue
operator=

OEBio::OEHierFragment

Constructors
GetAtom
GetFragmentNumber
GetOEResidue
GetResidue
GetResidues
operator=

OEBio::OEHierResidue

Constructors
GetAtom
GetAtoms
GetOEResidue
GetResidueName
GetResidueNumber
operator=

OEBio::OEHierView

Constructors
GetAtom
GetAtoms
GetChains
GetFragments
GetResidue
GetResidues
operator=

OEBio::OEInteractionHint

Constructors
CreateCopy
GetBgnFragment
GetDataType
GetDetails
GetEndFragment
GetFragment
GetInteractionType
GetWeight
IsDataType
IsInter
IsIntra
IsValid
SetDetails
SetWeight
operator=

OEBio::OEInteractionHintComponentTypeBase

Constructors
CreateCopy
GetName
IsValid
operator!=
operator=
operator==

OEBio::OEInteractionHintContainer

AddMolecule
Constructors
DeleteInteraction
GetInteractions
GetMolecule
GetMolecules
GetTitle
HasInteraction
IsValid
NumFragments
NumInteractions
NumMolecules
SetTitle
operator bool

OEBio::OEInteractionHintFragment

AddAtom
Constructors
CreateCopy
GetAtom
GetAtoms
GetComponentType
GetDataType
HasAtom
IsDataType
NumAtoms
operator=

OEBio::OEInteractionHintTypeBase

Constructors
CreateCopy
GetName
IsValid
operator!=
operator=
operator==

OEBio::OEIsAlphaCarbon

CreateCopy
operator()

OEBio::OEIsBackboneAtom

Constructors
CreateCopy
operator()

OEBio::OEIsCationPiInteractionHint

Constructors
CreateCopy
operator()

OEBio::OEIsChelatorInteractionHint

Constructors
CreateCopy
operator()

OEBio::OEIsClashInteractionHint

Constructors
CreateCopy
operator()

OEBio::OEIsContactInteractionHint

Constructors
CreateCopy
operator()

OEBio::OEIsCovalentInteractionHint

Constructors
CreateCopy
operator()

OEBio::OEIsHalogenBondInteractionHint

Constructors
CreateCopy
operator()

OEBio::OEIsHBondInteractionHint

Constructors
CreateCopy
operator()

OEBio::OEIsInterInteractionHint

Constructors
CreateCopy
operator()

OEBio::OEIsIntermolecularChelatorInteractionHint

Constructors
CreateCopy
operator()

OEBio::OEIsIntermolecularHBondInteractionHint

Constructors
CreateCopy
operator()

OEBio::OEIsIntraInteractionHint

Constructors
CreateCopy
operator()

OEBio::OEIsIntramolecularChelatorInteractionHint

Constructors
CreateCopy
operator()

OEBio::OEIsIntramolecularHBondInteractionHint

Constructors
CreateCopy
operator()

OEBio::OEIsSaltBridgeInteractionHint

Constructors
CreateCopy
operator()

OEBio::OEIsStackingInteractionHint

Constructors
CreateCopy
operator()

OEBio::OEIsStandardProteinResidue

OEBio::OEIsTypicalPrimaryLocationCode

OEBio::OEIsUnpairedLigandInteractionHint

Constructors
CreateCopy
operator()

OEBio::OEIsUnpairedProteinInteractionHint

Constructors
CreateCopy
operator()

OEBio::OEIsValidActiveSite

OEBio::OEIsWater

CreateCopy
operator()

OEBio::OELigandInteractionHintComponent

Constructors
CreateCopy
GetMaxHeavyAtom
IsValid
SetMaxHeavyAtom
operator=

OEBio::OEMakeAltMolOption

OEBio::OEMakeAltMolOption::None

OEBio::OEMakeAltMolOption::RemoveAltCodes

OEBio::OEMolComplexCategorizer

AddLigandName
ClearLigandSubSearch
Constructors
CreateCopy
GetBundleCofactors
GetLigandSubSearch
GetMaxLigAtoms
GetMaxLigResidues
GetMaxPeptideResidues
GetMaxProteinAtoms
GetMinLigAtoms
GetResidueCategoryData
SetBundleCofactors
SetLigandSubSearch
SetMaxLigAtoms
SetMaxLigResidues
SetMaxPeptideResidues
SetMaxProteinAtoms
SetMinLigAtoms
SetResidueCategoryData
UsingExplicitLigandName
operator()
operator=

OEBio::OEMolComplexCategorizerBase

CreateCopy
GetBundleCofactors
UsingExplicitLigandName
operator()

OEBio::OEMolComplexChainRoleFactory

OEBio::OEMolComplexData

OEBio::OEMolComplexData::CovalentLigandSDTag

OEBio::OEMolComplexData::CovalentSDTag

OEBio::OEMolComplexData::PartOrderSDTag

OEBio::OEMolComplexData::SDTagPrefix

OEBio::OEMolComplexData::SiteNumberSDTag

OEBio::OEMolComplexData::SurfaceWatersNumberSDTag

OEBio::OEMolComplexFilter

Constructors
CreateCopy
operator()
operator=

OEBio::OEMolComplexFilterCategory

OEBio::OEMolComplexFilterCategory::Anything

OEBio::OEMolComplexFilterCategory::ChainA

OEBio::OEMolComplexFilterCategory::Cofactor

OEBio::OEMolComplexFilterCategory::CofactorAndLigand

OEBio::OEMolComplexFilterCategory::CounterIon

OEBio::OEMolComplexFilterCategory::Covalent

OEBio::OEMolComplexFilterCategory::DNA_RNA

OEBio::OEMolComplexFilterCategory::Ligand, [1]

OEBio::OEMolComplexFilterCategory::Metal

OEBio::OEMolComplexFilterCategory::Misc

OEBio::OEMolComplexFilterCategory::Model1

OEBio::OEMolComplexFilterCategory::Nothing

OEBio::OEMolComplexFilterCategory::Nucleotide

OEBio::OEMolComplexFilterCategory::Peptide

OEBio::OEMolComplexFilterCategory::ProtComplex

OEBio::OEMolComplexFilterCategory::Protein

OEBio::OEMolComplexFilterCategory::Saccharide

OEBio::OEMolComplexFilterCategory::Site1

OEBio::OEMolComplexFilterCategory::Solution

OEBio::OEMolComplexFilterCategory::SurfaceWaters1

OEBio::OEMolComplexFilterCategory::Underdefined

OEBio::OEMolComplexFilterCategory::Unknown

OEBio::OEMolComplexFilterCategory::Water

OEBio::OEMolComplexFilterFactory

OEBio::OEMolComplexModelRoleFactory

OEBio::OEMolComplexOrderRoleFactory

OEBio::OEMolComplexRoleFactory

OEBio::OEMolComplexSiteRoleFactory

OEBio::OEMolComplexSurfaceWatersRoleFactory

OEBio::OEPerceiveInteractionHints

OEBio::OEPerceiveInteractionOptions

Constructors
GetExtendedSaltBridgeDistance
GetMaxAcceptorAngle
GetMaxAtomPairDistance
GetMaxCationPiAngle
GetMaxCationPiDistance
GetMaxChargeAidedHBondDistance
GetMaxContactFraction
GetMaxCovalentFraction
GetMaxDonorAngle
GetMaxHBondDistance
GetMaxHalogenAngle
GetMaxHalogenBondDistance
GetMaxMetalBondDistance
GetMaxPiStackAngle
GetMaxPiStackDistance
GetMaxSaltBridgeDistance
GetMaxTStackAngle
GetMaxTStackDistance
GetMaxUnpairedAngle
GetMaxUnpairedDistance
GetMinContactFraction
GetMinCovalentFraction
GetMinHBondContactFraction
SetMaxAcceptorAngle
SetMaxCationPiAngle
SetMaxCationPiDistance
SetMaxChargeAidedHBondDistance
SetMaxContactFraction
SetMaxCovalentFraction
SetMaxDonorAngle
SetMaxHBondDistance
SetMaxHalogenAngle
SetMaxHalogenBondDistance
SetMaxMetalBondDistance
SetMaxPiStackAngle
SetMaxPiStackDistance
SetMaxSaltBridgeDistance
SetMaxTStackAngle
SetMaxTStackDistance
SetMaxUnpairedAngle
SetMaxUnpairedDistance
SetMinContactFraction
SetMinCovalentFraction
SetMinHBondContactFraction

OEBio::OEPerceiveSecondaryStructure

OEBio::OEPlaceHydrogens

OEBio::OEPlaceHydrogensDetails

ClusterHasBadClash
Constructors
Describe
GetClusterScore
GetFlipBias
GetMoverNotes
GetNumClusters
GetNumFlips
GetNumHydrogensStandardized
GetNumMovers
IsSingleton
IsValid
operator=

OEBio::OEPlaceHydrogensMoverClass

OEBio::OEPlaceHydrogensMoverClass::AmideNO

OEBio::OEPlaceHydrogensMoverClass::AroCH3

OEBio::OEPlaceHydrogensMoverClass::AroN

OEBio::OEPlaceHydrogensMoverClass::Background

OEBio::OEPlaceHydrogensMoverClass::COOH

OEBio::OEPlaceHydrogensMoverClass::DH

OEBio::OEPlaceHydrogensMoverClass::Imidazole

OEBio::OEPlaceHydrogensMoverClass::Max

OEBio::OEPlaceHydrogensMoverClass::N

OEBio::OEPlaceHydrogensMoverClass::NH

OEBio::OEPlaceHydrogensMoverClass::NH2

OEBio::OEPlaceHydrogensMoverClass::NH3

OEBio::OEPlaceHydrogensMoverClass::SCH3

OEBio::OEPlaceHydrogensMoverClass::Water

OEBio::OEPlaceHydrogensMoverNote

Constructors
Describe
GetAngle
GetFlippedBestClusterScore
GetLabel
GetMoverClass
GetOriginalBestClusterScore
GetReferenceCoords
GetScore
GetStateIdx
GetStateName
HasBadClash
HasFlippedBadClusterClash
HasOriginalBadClusterClash
IsFlippable
IsFlipped
IsIonizable
IsIonized
IsRestrained
operator=

OEBio::OEPlaceHydrogensOptions

Constructors
GetAddMetadata
GetAltsMustBeCompatible
GetBadClashOverlapDistance
GetBypassPredicate
GetFlipBias
GetFlipBiasScale
GetFlipPredicate
GetMaxSubstateCutoff
GetNoFlipPredicate
GetStandardizeBondLen
GetWaterProcessing
SetAddMetadata
SetAltsMustBeCompatible
SetBadClashOverlapDistance
SetBypassPredicate
SetFlipBiasScale
SetFlipPredicate
SetMaxSubstateCutoff
SetNoFlipPredicate
SetStandardizeBondLen
SetWaterProcessing
operator=

OEBio::OEPlaceHydrogensWaterProcessing

OEBio::OEPlaceHydrogensWaterProcessing::Default

OEBio::OEPlaceHydrogensWaterProcessing::Focused

OEBio::OEPlaceHydrogensWaterProcessing::FullSearch

OEBio::OEPlaceHydrogensWaterProcessing::Ignore

OEBio::OEProteinInteractionHintComponent

Constructors
CreateCopy
IsValid
operator=

OEBio::OEProtTorType

OEBio::OEProtTorType::Chi1

OEBio::OEProtTorType::Chi2

OEBio::OEProtTorType::Chi3

OEBio::OEProtTorType::Chi4

OEBio::OEProtTorType::Chi5

OEBio::OEProtTorType::Max

OEBio::OEProtTorType::Omega

OEBio::OEProtTorType::Phi

OEBio::OEProtTorType::Psi

OEBio::OEProtTorType::Unknown

OEBio::OEResidueCategoryData

AddToDB
ClearDBCategory
Constructors
FoundInDB
GetEntries
RemoveFromDB
Size
operator=

OEBio::OEResidueDatabaseCategory

OEBio::OEResidueDatabaseCategory::AminoAcid

OEBio::OEResidueDatabaseCategory::Cofactor

OEBio::OEResidueDatabaseCategory::CofactorAndLigand

OEBio::OEResidueDatabaseCategory::Ligand

OEBio::OEResidueDatabaseCategory::Max

OEBio::OEResidueDatabaseCategory::Metal

OEBio::OEResidueDatabaseCategory::Misc

OEBio::OEResidueDatabaseCategory::NucleicAcid

OEBio::OEResidueDatabaseCategory::Polymer

OEBio::OEResidueDatabaseCategory::Saccharide

OEBio::OERMSD

OEBio::OERoleMolComplexFilterFactory

OEBio::OERotamer

GetChi1
GetChi2
GetChi3
GetChi4
GetProbability
GetResidueIndex

OEBio::OERotamerLibrary

OEBio::OERotamerLibrary::Default

OEBio::OERotamerLibrary::Dunbrack

OEBio::OERotamerLibrary::Richardson

OEBio::OESaltBridgeInteractionHint

Constructors
CreateCopy
IsValid
operator=

OEBio::OESaltBridgeInteractionHintType

OEBio::OESaltBridgeInteractionHintType::LigandNegative

OEBio::OESaltBridgeInteractionHintType::LigandPositive

OEBio::OESaltBridgeInteractionHintType::ProteinNegative

OEBio::OESaltBridgeInteractionHintType::ProteinPositive

OEBio::OESaltBridgeInteractionHintType::UnpairedLigand

OEBio::OESaltBridgeInteractionHintType::UnpairedLigandNegative

OEBio::OESaltBridgeInteractionHintType::UnpairedLigandPositive

OEBio::OESaltBridgeInteractionHintType::UnpairedProtein

OEBio::OESaltBridgeInteractionHintType::UnpairedProteinNegative

OEBio::OESaltBridgeInteractionHintType::UnpairedProteinPositive

OEBio::OESecondaryStructure

OEBio::OESecondaryStructure::Any

OEBio::OESecondaryStructure::Helix

OEBio::OESecondaryStructure::Helix310

OEBio::OESecondaryStructure::HelixAlpha

OEBio::OESecondaryStructure::HelixLeft

OEBio::OESecondaryStructure::HelixPi

OEBio::OESecondaryStructure::Sheet

OEBio::OESecondaryStructure::StrandSense

OEBio::OESecondaryStructure::Turn

OEBio::OESecondaryStructure::Turn3

OEBio::OESecondaryStructure::Turn4

OEBio::OESecondaryStructure::Turn5

OEBio::OESecondaryStructure::Unassigned

OEBio::OESecondaryStructurePacked

OEBio::OESeqAlignmentMethod

OEBio::OESeqAlignmentMethod::BLOSUM62

OEBio::OESeqAlignmentMethod::GONNET

OEBio::OESeqAlignmentMethod::Identity

OEBio::OESeqAlignmentMethod::None

OEBio::OESeqAlignmentMethod::PAM250

OEBio::OESequenceAlignment

Clear
Constructors
GetBackboneMatch
GetCAlphaMatch
GetChainID
GetExtend
GetGap
GetMaxSeqIdx
GetMethod
GetScore
GetSequenceIdentity
GetSequenceSimilarity
operator bool
operator=

OEBio::OESetCrystalSymmetry

OEBio::OESetRotamer

OEBio::OESetTorsion

OEBio::OESetupSplitMolComplexOptions

OEBio::OESplitMolComplex

OEBio::OESplitMolComplexOptions

Constructors
GetAddRGroup
GetAdjustHCount
GetAssumptions
GetCategorizer
GetCollectProteinByChain
GetCombinedFilter
GetLigandFilter
GetMaxBindingSiteDist
GetMaxSurfaceWaterDist
GetOtherFilter
GetPromoteUnknowns
GetProteinFilter
GetSeparateResidues
GetSplitCovalent
GetSplitCovalentCofactors
GetWarnNoLigand
GetWaterFilter
ResetFilters
SetAddRGroup
SetAdjustHCount
SetAssumptions
SetCategorizer
SetCollectProteinByChain
SetLigandFilter
SetMaxBindingSiteDist
SetMaxSurfaceWaterDist
SetPromoteUnknowns
SetProteinFilter
SetSeparateResidues
SetSplitCovalent
SetSplitCovalentCofactors
SetWarnNoLigand
SetWaterFilter
operator!=
operator=
operator==

OEBio::OESplitMolComplexParam

OEBio::OESplitMolComplexParam::DoNotOverride

OEBio::OESplitMolComplexSetup

OEBio::OESplitMolComplexSetup::All

OEBio::OESplitMolComplexSetup::CovBondTreatment

OEBio::OESplitMolComplexSetup::CovCofactor

OEBio::OESplitMolComplexSetup::CovLig

OEBio::OESplitMolComplexSetup::LigFilter

OEBio::OESplitMolComplexSetup::LigName

OEBio::OESplitMolComplexSetup::MaxSiteDist

OEBio::OESplitMolComplexSetup::MaxSurfDist

OEBio::OESplitMolComplexSetup::ModelNum

OEBio::OESplitMolComplexSetup::ProtFilter

OEBio::OESplitMolComplexSetup::SeparateRes

OEBio::OESplitMolComplexSetup::SiteNum

OEBio::OESplitMolComplexSetup::SurfWat

OEBio::OESplitMolComplexSetup::WatFilter

OEBio::OEStackingInteractionHint

Constructors
CreateCopy
IsValid
operator=

OEBio::OEStackingInteractionHintType

OEBio::OEStackingInteractionHintType::Pi

OEBio::OEStackingInteractionHintType::T

OEBio::OESwapAIEResidueAtoms

OEBio::OESymmetryCartesianToFractional

OEBio::OESymmetryFractionalToCartesian

OEBio::OEWriteAlignment

OEBondBase

OEBondIdxSelected

OEBuildMDLQueryExpression

OEBuildMDLQueryExpressions

OEChem::OE2DRingDictionary

AddRings
Constructors
NumRings

OEChem::OE2DRingDictionaryCreatorOptions

Constructors
GetAddCarbonSkeleton
GetAddCarbonSkeletonWithBondStereo
GetRetainExistingBuiltInTemplates
GetRetainExistingTemplates
SetAddCarbonSkeleton
SetAddCarbonSkeletonWithBondStereo
SetRetainExistingBuiltInTemplates
SetRetainExistingTemplates
operator=

OEChem::OE3DToAtomStereo

OEChem::OE3DToBondStereo

OEChem::OE3DToInternalStereo

OEChem::OEAbsCanonicalConfTest

CombineMols
CompareMols
CreateCopy

OEChem::OEAbsoluteConfTest

CombineMols
CompareMols
Constructors
CreateCopy

OEChem::OEAcyclicPath

OEChem::OEAddCustomFASTAResidue

OEChem::OEAddExplicitHydrogens

OEChem::OEAddMols

OEChem::OEAddPDBData

OEChem::OEAddSDData

OEChem::OEAnisoUij

Constructors
GetU11
GetU12
GetU13
GetU22
GetU23
GetU33
SetU11
SetU12
SetU13
SetU22
SetU23
SetU33

OEChem::OEAroModel

OEChem::OEAroModel::Daylight

OEChem::OEAroModel::MDL

OEChem::OEAroModel::MMFF

OEChem::OEAroModel::OpenEye

OEChem::OEAroModel::Tripos

OEChem::OEAssignAromaticFlags

OEChem::OEAssignBondiVdWRadii

OEChem::OEAssignCovalentRadii

OEChem::OEAssignDelphiRadii

OEChem::OEAssignFormalCharges

OEChem::OEAssignHonigIonicCavityRadii

OEChem::OEAssignHybridization

OEChem::OEAssignImplicitHydrogens

OEChem::OEAssignMDLHydrogens

OEChem::OEAssignPaulingVdWRadii

OEChem::OEAssignRadii

OEChem::OEAssignResidueNumbers

OEChem::OEAssignSerialNumbers

OEChem::OEAssignZap7Radii

OEChem::OEAssignZap9Radii

OEChem::OEAtomBase

AddBond
Clear
GetAtomicNum
GetAtoms
GetAxial
GetBond
GetBonds
GetDegree
GetExplicitDegree
GetExplicitHCount
GetExplicitValence
GetFormalCharge
GetHvyDegree
GetHvyValence
GetHyb
GetIdx
GetImplicitHCount
GetIntType
GetIsotope
GetMapIdx
GetName
GetParent
GetPartialCharge
GetRadius
GetRxnRole
GetStereo
GetSymmetryClass
GetTotalHCount
GetType
GetValence
HasAlphaBetaUnsat
HasStereoSpecified
IsAromatic
IsCarbon
IsChiral
IsConnected
IsDataType
IsDeleted
IsHalogen
IsHydrogen
IsInRing
IsMetal
IsNitrogen
IsOxygen
IsPhosphorus
IsPolar
IsPolarHydrogen
IsSulfur
OrderBonds
RemoveBond
SetAromatic
SetAtomicNum
SetAxial
SetChiral
SetFormalCharge
SetHyb
SetImplicitHCount
SetInRing
SetIntType
SetIsotope
SetMapIdx
SetName
SetPartialCharge
SetRadius
SetRxnRole
SetStereo
SetSymmetryClass
SetType
Sweep
operator=

OEChem::OEAtomBondSet

Add
AddAtom
AddAtoms
AddBond
AddBonds
Clear
ClearAtoms
ClearAtomsAndBonds
ClearBonds
Constructors
CreateCopy
GetAtoms
GetBonds
HasAtom
HasBond
IsEmpty
NumAtoms
NumBonds
Remove
RemoveAtom
RemoveAtoms
RemoveBond
RemoveBonds
Sweep
Translate
operator=

OEChem::OEAtomGetMDLParity

OEChem::OEAtomGetResidue

OEChem::OEAtomGetSmallestRingSize

OEChem::OEAtomIsInAgent

CreateCopy
operator()

OEChem::OEAtomIsInAromaticRingSize

OEChem::OEAtomIsInChain

CreateCopy
operator()

OEChem::OEAtomIsInProduct

CreateCopy
operator()

OEChem::OEAtomIsInReactant

CreateCopy
operator()

OEChem::OEAtomIsInResidue

Constructors
CreateCopy
operator()

OEChem::OEAtomIsInRing

CreateCopy
operator()

OEChem::OEAtomIsInRingSize

OEChem::OEAtomSetMDLParity

OEChem::OEAtomSetResidue

OEChem::OEAtomStereo

OEChem::OEAtomStereo::All

OEChem::OEAtomStereo::Left

OEChem::OEAtomStereo::LeftHanded

OEChem::OEAtomStereo::Right

OEChem::OEAtomStereo::RightHanded

OEChem::OEAtomStereo::Tetra

OEChem::OEAtomStereo::Tetrahedral

OEChem::OEAtomStereo::Undefined

OEChem::OEBAtomIntTypeOpts

OEChem::OEBDefaultOpts

OEChem::OEBGZipCompressOpts

OEChem::OEBondBase

Clear
GetBgn
GetBgnIdx
GetEnd
GetEndIdx
GetIdx
GetIntType
GetNbr
GetOrder
GetParent
GetStereo
GetType
HasStereoSpecified
IsAromatic
IsChiral
IsDataType
IsDeleted
IsInRing
IsRotor
SetAromatic
SetBgn
SetChiral
SetEnd
SetInRing
SetIntType
SetOrder
SetStereo
SetType
SwapEnds
Sweep
operator=

OEChem::OEBondGetSmallestRingSize

OEChem::OEBondIsInAromaticRingSize

OEChem::OEBondIsInChain

CreateCopy
operator()

OEChem::OEBondIsInRing

CreateCopy
operator()

OEChem::OEBondIsInRingSize

OEChem::OEBondStereo

OEChem::OEBondStereo::All

OEChem::OEBondStereo::Cis

OEChem::OEBondStereo::CisTrans

OEChem::OEBondStereo::DoubleEither

OEChem::OEBondStereo::Hash

OEChem::OEBondStereo::Trans

OEChem::OEBondStereo::Undefined

OEChem::OEBondStereo::Wavy

OEChem::OEBondStereo::Wedge

OEChem::OEBRotCompressOpts

OEChem::OEBuildMDLQueryExpressions

OEChem::OECalcCartesianCoord

OEChem::OECalcInternalCoord

OEChem::OECalculateMolecularWeight

OEChem::OECanonicalOrderAtoms

OEChem::OECanonicalOrderBonds

OEChem::OECenter

OEChem::OEChem

OEChem::OEChem::FzFalse

OEChem::OEChem::FzMaybe

OEChem::OEChem::FzTrue

OEChem::OEChem::OEAroModelDaylight

OEChem::OEChem::OEAroModelMDL

OEChem::OEChem::OEAroModelMMFF

OEChem::OEChem::OEAroModelOpenEye

OEChem::OEChem::OEAroModelTripos

OEChem::OEChemGetArch

OEChem::OEChemGetLicensee

OEChem::OEChemGetPlatform

OEChem::OEChemGetRelease

OEChem::OEChemGetSite

OEChem::OEChemGetVersion

OEChem::OEChemIsLicensed

OEChem::OECIPAtomStereo

OEChem::OECIPAtomStereo::NotStereo

OEChem::OECIPAtomStereo::R

OEChem::OECIPAtomStereo::S

OEChem::OECIPAtomStereo::UnspecStereo

OEChem::OECIPBondStereo

OEChem::OECIPBondStereo::E

OEChem::OECIPBondStereo::NotStereo

OEChem::OECIPBondStereo::UnspecStereo

OEChem::OECIPBondStereo::Z

OEChem::OEClear2DRingDictionary

OEChem::OEClearAromaticFlags

OEChem::OEClearPartialCharges

OEChem::OEClearPDBData

OEChem::OEClearResidue

OEChem::OEClearResidues

OEChem::OEClearRotorCompressData

OEChem::OEClearSDData

OEChem::OECliqueSearch

AddConstraint
ClearConstraints
Constructors
GetMaxMatches
GetMinAtoms
GetPattern
GetSaveRange
Init
Match
SetMCSFunc
SetMaxMatches
SetMinAtoms
SetSaveRange
operator bool
operator=

OEChem::OEConfBase

AddAtom
AddBond
ClearCoords
Delete
GetCoords
GetCoordsPtr
GetIdx
GetMCMol
GetTitle
GetTorsion
GetTransform
HasTitle
IsDeleted
RemoveAtom
RemoveBond
SetCoords
SetTorsion
Transform
operator=

OEChem::OEConfTestBase

CombineMols
CompareMols
CreateCopy
HasCompareMols

OEChem::OEConstCoords

Constructors
GetPtr
operator const T *

OEChem::OECoordArray

Constructors
operator double *
operator=

OEChem::OECoordsType

OEChem::OECoordsType::DoubleType

OEChem::OECoordsType::FloatType

OEChem::OECoordsType::HalfFloatType

OEChem::OECoordsType::LongDoubleType

OEChem::OECoordsType::MaxType

OEChem::OECoordsType::Undefined

OEChem::OECopyMol

OEChem::OECopyPDBData

OEChem::OECopySDData

OEChem::OECorrectAcidProtonGeometry

OEChem::OECount

OEChem::OECreateAbsSmiString

OEChem::OECreateCanSmiString

OEChem::OECreateCSVHeader

OEChem::OECreateInChI

OEChem::OECreateInChIKey

OEChem::OECreateIsoSmiString

OEChem::OECreateMolDatabaseIdx

OEChem::OECreateSlnString

OEChem::OECreateSmiString

OEChem::OECSVHeader

Clear
Constructors
GetColumnName
GetColumnNames
GetNumColumns
IsValid
operator bool
operator=

OEChem::OEDefaultConfTest

CombineMols
CompareMols
CreateCopy
HasCompareMols

OEChem::OEDefaultImplicitHCount

OEChem::OEDefaultMDLHCount

OEChem::OEDeleteEverythingExceptTheFirstLargestComponent

OEChem::OEDeletePDBData

OEChem::OEDeleteSDData

OEChem::OEDetermineAromaticRingSystems

OEChem::OEDetermineComponents

OEChem::OEDetermineConnectivity

OEChem::OEDetermineReactants

OEChem::OEDetermineRingSystems

OEChem::OEDisassembleExpressions

OEChem::OEDoubleBondCount

OEChem::OEDoubleBondOCount

OEChem::OEElementHistogram

OEChem::OEElemNo

OEChem::OEElemNo::Ac

OEChem::OEElemNo::Ag

OEChem::OEElemNo::Al

OEChem::OEElemNo::Am

OEChem::OEElemNo::Ar

OEChem::OEElemNo::As

OEChem::OEElemNo::At

OEChem::OEElemNo::Au

OEChem::OEElemNo::B

OEChem::OEElemNo::Ba

OEChem::OEElemNo::Be

OEChem::OEElemNo::Bh

OEChem::OEElemNo::Bi

OEChem::OEElemNo::Bk

OEChem::OEElemNo::Br

OEChem::OEElemNo::C

OEChem::OEElemNo::Ca

OEChem::OEElemNo::Cd

OEChem::OEElemNo::Ce

OEChem::OEElemNo::Cf

OEChem::OEElemNo::Cl

OEChem::OEElemNo::Cm

OEChem::OEElemNo::Co

OEChem::OEElemNo::Cr

OEChem::OEElemNo::Cs

OEChem::OEElemNo::Cu

OEChem::OEElemNo::D

OEChem::OEElemNo::Db

OEChem::OEElemNo::Ds

OEChem::OEElemNo::Du

OEChem::OEElemNo::Dy

OEChem::OEElemNo::Er

OEChem::OEElemNo::Es

OEChem::OEElemNo::Eu

OEChem::OEElemNo::F

OEChem::OEElemNo::Fe

OEChem::OEElemNo::Fm

OEChem::OEElemNo::Fr

OEChem::OEElemNo::Ga

OEChem::OEElemNo::Gd

OEChem::OEElemNo::Ge

OEChem::OEElemNo::H

OEChem::OEElemNo::He

OEChem::OEElemNo::Hf

OEChem::OEElemNo::Hg

OEChem::OEElemNo::Ho

OEChem::OEElemNo::Hs

OEChem::OEElemNo::I

OEChem::OEElemNo::In

OEChem::OEElemNo::Ir

OEChem::OEElemNo::K

OEChem::OEElemNo::Kr

OEChem::OEElemNo::La

OEChem::OEElemNo::Li

OEChem::OEElemNo::Lp

OEChem::OEElemNo::Lr

OEChem::OEElemNo::Lu

OEChem::OEElemNo::MAXELEM

OEChem::OEElemNo::Md

OEChem::OEElemNo::Mg

OEChem::OEElemNo::Mn

OEChem::OEElemNo::Mo

OEChem::OEElemNo::Mt

OEChem::OEElemNo::N

OEChem::OEElemNo::Na

OEChem::OEElemNo::Nb

OEChem::OEElemNo::Nd

OEChem::OEElemNo::Ne

OEChem::OEElemNo::Ni

OEChem::OEElemNo::No

OEChem::OEElemNo::Np

OEChem::OEElemNo::O

OEChem::OEElemNo::Os

OEChem::OEElemNo::P

OEChem::OEElemNo::Pa

OEChem::OEElemNo::Pb

OEChem::OEElemNo::Pd

OEChem::OEElemNo::Pm

OEChem::OEElemNo::Po

OEChem::OEElemNo::Pr

OEChem::OEElemNo::Pt

OEChem::OEElemNo::Pu

OEChem::OEElemNo::Ra

OEChem::OEElemNo::Rb

OEChem::OEElemNo::Re

OEChem::OEElemNo::Rf

OEChem::OEElemNo::Rg

OEChem::OEElemNo::Rh

OEChem::OEElemNo::Rn

OEChem::OEElemNo::Ru

OEChem::OEElemNo::S

OEChem::OEElemNo::Sb

OEChem::OEElemNo::Sc

OEChem::OEElemNo::Se

OEChem::OEElemNo::Sg

OEChem::OEElemNo::Si

OEChem::OEElemNo::Sm

OEChem::OEElemNo::Sn

OEChem::OEElemNo::Sr

OEChem::OEElemNo::T

OEChem::OEElemNo::Ta

OEChem::OEElemNo::Tb

OEChem::OEElemNo::Tc

OEChem::OEElemNo::Te

OEChem::OEElemNo::Th

OEChem::OEElemNo::Ti

OEChem::OEElemNo::Tl

OEChem::OEElemNo::Tm

OEChem::OEElemNo::U

OEChem::OEElemNo::V

OEChem::OEElemNo::W

OEChem::OEElemNo::Xe

OEChem::OEElemNo::Xx

OEChem::OEElemNo::Y

OEChem::OEElemNo::Yb

OEChem::OEElemNo::Zn

OEChem::OEElemNo::Zr

OEChem::OEEuler

Constructors
CreateCopy
Extract
GetAngles
GetInverse
GetPhi
GetPsi
GetTheta
SetPhi
SetPsi
SetTheta
operator=

OEChem::OEEulerRotate

OEChem::OEExactGraphMatch

OEChem::OEExpandSuperAtoms

OEChem::OEExprBase

Constructors
CreateCopy
GetType
IsEquivalent

OEChem::OEExprOpts

OEChem::OEExprOpts::Aromaticity

OEChem::OEExprOpts::AtomicNumber

OEChem::OEExprOpts::AutomorphAtoms

OEChem::OEExprOpts::AutomorphBonds

OEChem::OEExprOpts::BondOrder

OEChem::OEExprOpts::Chiral

OEChem::OEExprOpts::DefaultAtoms

OEChem::OEExprOpts::DefaultBonds

OEChem::OEExprOpts::Degree

OEChem::OEExprOpts::EqAromatic

OEChem::OEExprOpts::EqCAliphaticONS

OEChem::OEExprOpts::EqCHalogen

OEChem::OEExprOpts::EqCPSAcidRoot

OEChem::OEExprOpts::EqDoubleTriple

OEChem::OEExprOpts::EqHalogen

OEChem::OEExprOpts::EqKetoneSulfoneRoot

OEChem::OEExprOpts::EqMetal

OEChem::OEExprOpts::EqNotAromatic

OEChem::OEExprOpts::EqON

OEChem::OEExprOpts::EqONS

OEChem::OEExprOpts::EqPS

OEChem::OEExprOpts::EqSingleDouble

OEChem::OEExprOpts::ExactAtoms

OEChem::OEExprOpts::ExactBonds

OEChem::OEExprOpts::ExplicitDegree

OEChem::OEExprOpts::FormalCharge

OEChem::OEExprOpts::HCount

OEChem::OEExprOpts::HvyDegree

OEChem::OEExprOpts::Hybridization

OEChem::OEExprOpts::ImplicitHCount

OEChem::OEExprOpts::IntType

OEChem::OEExprOpts::Mass

OEChem::OEExprOpts::RingMember

OEChem::OEExprOpts::StrictFormalCharge

OEChem::OEExprOpts::StringType

OEChem::OEExprOpts::SymmetryClass

OEChem::OEExprOpts::Valence

OEChem::OEExprType

OEChem::OEExprType::AllowedElements

OEChem::OEExprType::And

OEChem::OEExprType::Aromatic

OEChem::OEExprType::AromElem

OEChem::OEExprType::BondOrder

OEChem::OEExprType::Charge

OEChem::OEExprType::Chiral

OEChem::OEExprType::Connect

OEChem::OEExprType::Const

OEChem::OEExprType::DefaultEdge

OEChem::OEExprType::Degree

OEChem::OEExprType::DoubleAromBond

OEChem::OEExprType::Element

OEChem::OEExprType::Halogen

OEChem::OEExprType::HCount

OEChem::OEExprType::Hyb

OEChem::OEExprType::Implicit

OEChem::OEExprType::IntType

OEChem::OEExprType::Mass

OEChem::OEExprType::Metal

OEChem::OEExprType::MinDegree

OEChem::OEExprType::MinHCount

OEChem::OEExprType::Not

OEChem::OEExprType::Or

OEChem::OEExprType::Recurs

OEChem::OEExprType::Ring

OEChem::OEExprType::RingBondCount

OEChem::OEExprType::Saturation

OEChem::OEExprType::SingleAromBond

OEChem::OEExprType::Size

OEChem::OEExprType::Stereo

OEChem::OEExprType::StringType

OEChem::OEExprType::SymmetryClass

OEChem::OEExprType::TerminalAtom

OEChem::OEExprType::Undefined

OEChem::OEExprType::Valence

OEChem::OEExtractRingTemplateOptions

Constructors
GetRetainBondStereo
GetRetainExistingTemplates
SetRetainBondStereo
SetRetainExistingTemplates
operator=

OEChem::OEExtractRingTemplates

OEChem::OEFindRingAtomsAndBonds

OEChem::OEFormalPartialCharges

OEChem::OEFormat

OEChem::OEFormat::CAN

OEChem::OEFormat::CDX

OEChem::OEFormat::CSV

OEChem::OEFormat::Default

OEChem::OEFormat::FASTA

OEChem::OEFormat::INCHI

OEChem::OEFormat::INCHIKEY

OEChem::OEFormat::ISM

OEChem::OEFormat::MAXFORMAT

OEChem::OEFormat::MDL

OEChem::OEFormat::MF

OEChem::OEFormat::MMOD

OEChem::OEFormat::MOL2

OEChem::OEFormat::MOL2H

OEChem::OEFormat::MOPAC

OEChem::OEFormat::OEB

OEChem::OEFormat::PDB

OEChem::OEFormat::RDF

OEChem::OEFormat::SDF

OEChem::OEFormat::SKC

OEChem::OEFormat::SLN

OEChem::OEFormat::SMI

OEChem::OEFormat::UNDEFINED

OEChem::OEFormat::USM

OEChem::OEFormat::XYZ

OEChem::OEFuzzVal

OEChem::OEFuzzVal::False

OEChem::OEFuzzVal::Maybe

OEChem::OEFuzzVal::True

OEChem::OEFuzzy

Constructors
operator bool
operator!
operator!=
operator&&
operator==
operator||

OEChem::OEGasteigerInitialCharges

OEChem::OEGasteigerPartialCharges

OEChem::OEGenerate2DCoordinates

OEChem::OEGetAbsTorsion

OEChem::OEGetAminoAcidCode

OEChem::OEGetAngle

OEChem::OEGetAnisou

OEChem::OEGetAtomComment

OEChem::OEGetAtomicNum

OEChem::OEGetAtomicSymbol

OEChem::OEGetAutomorphs

OEChem::OEGetAverageWeight

OEChem::OEGetBondiVdWRadius

OEChem::OEGetCenterAndExtents

OEChem::OEGetCenterOfMass

OEChem::OEGetComment

OEChem::OEGetCovalentRadius

OEChem::OEGetDefaultMass

OEChem::OEGetDelphiRadius

OEChem::OEGetDimensionFromCoords

OEChem::OEGetDistance

OEChem::OEGetDistance2

OEChem::OEGetDoubleBondNeighbor

OEChem::OEGetFileExtension

OEChem::OEGetFileType

OEChem::OEGetFormatExtension

OEChem::OEGetFormatString

OEChem::OEGetHonigIonicCavityRadius

OEChem::OEGetHybridization

OEChem::OEGetIsotopicWeight

OEChem::OEGetMCSExhaustiveSearchTruncationLimit

OEChem::OEGetMDLDimensionFromCoords

OEChem::OEGetMolDatabaseIdxFileName

OEChem::OEGetMolDBIdx

OEChem::OEGetNbrAtom

Constructors
CreateCopy
operator()

OEChem::OEGetNearestNbrs

OEChem::OEGetOEGraphMol

OEChem::OEGetOEMol

OEChem::OEGetOEQMol

OEChem::OEGetOtherNeighbor

OEChem::OEGetPackedCoords

OEChem::OEGetPathLength

OEChem::OEGetPaulingVdWRadius

OEChem::OEGetPDBAtomIndex

OEChem::OEGetPDBAtomName

OEChem::OEGetPDBBaseData

OEChem::OEGetPDBData

OEChem::OEGetPDBDataPairs

OEChem::OEGetRadiiTypeName

OEChem::OEGetResidueIndex

OEChem::OEGetResidueName

OEChem::OEGetSDBaseData

OEChem::OEGetSDData

OEChem::OEGetSDDataPairs

OEChem::OEGetSingleBondNeighbor

OEChem::OEGetSmallestSubtree

OEChem::OEGetSmiStringOrder

OEChem::OEGetSoleBond

OEChem::OEGetSoleDoubleBond

OEChem::OEGetSoleNeighbor

OEChem::OEGetSoleSingleBond

OEChem::OEGetSoleTripleBond

OEChem::OEGetSubtree

OEChem::OEGetTokenizer

OEChem::OEGetTorsion

OEChem::OEGetTorsions

OEChem::OEGetTripleBondNeighbor

OEChem::OEGetUniMolecularRxnIter

OEChem::OEGraphMol

Constructors
SCMol
operator OEMolBase &
operator=

OEChem::OEGroupBase

AddAtom
AddBond
Clear
DeleteAtom
DeleteBond
GetAtoms
GetBonds
GetGroupDefinition
GetGroupType
GetParent
HasAtom
HasBond
IsDeleted
IsEmpty
NumAtoms
NumBonds
SetGroupType
Sweep

OEChem::OEGroupType

OEChem::OEGroupType::Component

OEChem::OEGroupType::MDLAbsStereo

OEChem::OEGroupType::MDLAndStereo

OEChem::OEGroupType::MDLOrStereo

OEChem::OEGroupType::Undefined

OEChem::OEHasAlphaBetaUnsat

Constructors
CreateCopy
operator()

OEChem::OEHasAnisou

CreateCopy
operator()

OEChem::OEHasAtomicNum

Constructors
CreateCopy
operator()

OEChem::OEHasAtomInGroup

Constructors
CreateCopy
operator()

OEChem::OEHasAtomName

Constructors
CreateCopy
operator()

OEChem::OEHasAtomStereoHydrogens

OEChem::OEHasAtomStereoSpecified

Constructors
CreateCopy
operator()

OEChem::OEHasBondInGroup

Constructors
CreateCopy
operator()

OEChem::OEHasBondStereoHydrogens

OEChem::OEHasBondStereoSpecified

Constructors
CreateCopy
operator()

OEChem::OEHasChainID

Constructors
CreateCopy
operator()

OEChem::OEHasDoubleBond

OEChem::OEHasDoubleBondO

OEChem::OEHasExplicitHydrogens

OEChem::OEHasFormalCharge

Constructors
CreateCopy
operator()

OEChem::OEHasFragmentNumber

Constructors
CreateCopy
operator()

OEChem::OEHasGroupType

Constructors
CreateCopy
operator()

OEChem::OEHasHvyDegree

Constructors
CreateCopy
operator()

OEChem::OEHasIdx

Constructors
CreateCopy
operator()

OEChem::OEHasImplicitHydrogens

OEChem::OEHasMapIdx

Constructors
CreateCopy
operator()

OEChem::OEHasMolDBIdx

OEChem::OEHasMultipleBond

OEChem::OEHasOrder

Constructors
CreateCopy
operator()

OEChem::OEHasPartialCharges

OEChem::OEHasPDBData

OEChem::OEHasResidue

OEChem::OEHasResidueNumber

Constructors
CreateCopy
operator()

OEChem::OEHasResidues

OEChem::OEHasSDData

OEChem::OEHasSingleBond

OEChem::OEHasStereoHydrogens

OEChem::OEHasTokenizer

OEChem::OEHasTripleBond

OEChem::OEHistogramFormula

OEChem::OEHybridization

OEChem::OEHybridization::sp

OEChem::OEHybridization::sp2

OEChem::OEHybridization::sp3

OEChem::OEHybridization::sp3d

OEChem::OEHybridization::sp3d2

OEChem::OEHybridization::Unknown

OEChem::OEIdxSelected

Constructors
CreateCopy
operator()

OEChem::OEIFlavor

OEChem::OEIFlavor::CAN

OEChem::OEIFlavor::CAN::Default

OEChem::OEIFlavor::CDX

OEChem::OEIFlavor::CDX::Default

OEChem::OEIFlavor::CSV

OEChem::OEIFlavor::CSV::DEFAULT

OEChem::OEIFlavor::CSV::Default

OEChem::OEIFlavor::CSV::Header

OEChem::OEIFlavor::FASTA

OEChem::OEIFlavor::FASTA::CustomResidues

OEChem::OEIFlavor::FASTA::Default

OEChem::OEIFlavor::FASTA::EmbeddedSMILES

OEChem::OEIFlavor::Generic

OEChem::OEIFlavor::Generic::AroMask

OEChem::OEIFlavor::Generic::DEFAULT

OEChem::OEIFlavor::Generic::Default

OEChem::OEIFlavor::Generic::GenericMask

OEChem::OEIFlavor::Generic::OEAroModelDaylight

OEChem::OEIFlavor::Generic::OEAroModelMDL

OEChem::OEIFlavor::Generic::OEAroModelMMFF

OEChem::OEIFlavor::Generic::OEAroModelOpenEye

OEChem::OEIFlavor::Generic::OEAroModelTripos

OEChem::OEIFlavor::Generic::Rings

OEChem::OEIFlavor::Generic::SpecificMask

OEChem::OEIFlavor::ISM

OEChem::OEIFlavor::ISM::Default

OEChem::OEIFlavor::MDL

OEChem::OEIFlavor::MDL::Default

OEChem::OEIFlavor::MDL::FixBondMarks

OEChem::OEIFlavor::MMOD

OEChem::OEIFlavor::MMOD::Default

OEChem::OEIFlavor::MMOD::FormalCrg

OEChem::OEIFlavor::MOL2

OEChem::OEIFlavor::MOL2::AllMask

OEChem::OEIFlavor::MOL2::Default

OEChem::OEIFlavor::MOL2::DEFAULT

OEChem::OEIFlavor::MOL2::Forcefield

OEChem::OEIFlavor::MOL2::M2H

OEChem::OEIFlavor::MOL2H

OEChem::OEIFlavor::MOL2H::AllMask

OEChem::OEIFlavor::MOL2H::Default

OEChem::OEIFlavor::MOL2H::DEFAULT

OEChem::OEIFlavor::MOL2H::M2H

OEChem::OEIFlavor::OEB

OEChem::OEIFlavor::OEB::Default

OEChem::OEIFlavor::PDB

OEChem::OEIFlavor::PDB::ALL

OEChem::OEIFlavor::PDB::AllMask

OEChem::OEIFlavor::PDB::ALTLOC

OEChem::OEIFlavor::PDB::BasicMask

OEChem::OEIFlavor::PDB::BondOrder

OEChem::OEIFlavor::PDB::CHARGE

OEChem::OEIFlavor::PDB::Connect

OEChem::OEIFlavor::PDB::DATA

OEChem::OEIFlavor::PDB::DEFAULT

OEChem::OEIFlavor::PDB::Default

OEChem::OEIFlavor::PDB::DELPHI

OEChem::OEIFlavor::PDB::END

OEChem::OEIFlavor::PDB::ENDM

OEChem::OEIFlavor::PDB::ExtraMask

OEChem::OEIFlavor::PDB::FORMALCHARGE

OEChem::OEIFlavor::PDB::FormalCrg

OEChem::OEIFlavor::PDB::ImplicitH

OEChem::OEIFlavor::PDB::RADIUS

OEChem::OEIFlavor::PDB::Rings

OEChem::OEIFlavor::PDB::SecStruct

OEChem::OEIFlavor::PDB::TER

OEChem::OEIFlavor::PDB::TerMask

OEChem::OEIFlavor::RDF

OEChem::OEIFlavor::RDF::Default

OEChem::OEIFlavor::RDF::FixBondMarks

OEChem::OEIFlavor::SDF

OEChem::OEIFlavor::SDF::Default

OEChem::OEIFlavor::SDF::FixBondMarks

OEChem::OEIFlavor::SKC

OEChem::OEIFlavor::SKC::Default

OEChem::OEIFlavor::SMI

OEChem::OEIFlavor::SMI::Canon

OEChem::OEIFlavor::SMI::Default

OEChem::OEIFlavor::SMI::DEFAULT

OEChem::OEIFlavor::SMI::Strict

OEChem::OEIFlavor::USM

OEChem::OEIFlavor::USM::Default

OEChem::OEIFlavor::XYZ

OEChem::OEIFlavor::XYZ::BondOrder

OEChem::OEIFlavor::XYZ::Connect

OEChem::OEIFlavor::XYZ::Default

OEChem::OEIFlavor::XYZ::ExtraMask

OEChem::OEIFlavor::XYZ::FormalCrg

OEChem::OEIFlavor::XYZ::ImplicitH

OEChem::OEIFlavor::XYZ::Rings

OEChem::OEInChIOptions

Constructors
GetChiral
GetFixedHLayer
GetHydrogens
GetRacemicStereo
GetReconnectedMetals
GetRelativeStereo
GetStereo
GetTimeout
SetChiral
SetFixedHLayer
SetHydrogens
SetRacemicStereo
SetReconnectedMetals
SetRelativeStereo
SetStereo
SetTimeout
operator=

OEChem::OEInChIToMol

OEChem::OEInit2DRingDictionary

OEChem::OEInitDefaultHandler

OEChem::OEInitHandler

OEChem::OEInSamePart

Constructors
CreateCopy
operator()
operator=

OEChem::OEInvertCenter

OEChem::OEIs2DFormat

OEChem::OEIs3DFormat

OEChem::OEIsAromaticAtom

CreateCopy
operator()

OEChem::OEIsAromaticBond

CreateCopy
operator()

OEChem::OEIsAtomHybridization

Constructors
CreateCopy
operator()

OEChem::OEIsBinary

OEChem::OEIsCAlpha

CreateCopy
operator()

OEChem::OEIsCarbon

CreateCopy
operator()

OEChem::OEIsChiralAtom

CreateCopy
operator()

OEChem::OEIsChiralBond

CreateCopy
operator()

OEChem::OEIsCommonIsotope

OEChem::OEIsExtension

OEChem::OEIsGZip

OEChem::OEIsHalide

CreateCopy
operator()

OEChem::OEIsHalogen

CreateCopy
operator()

OEChem::OEIsHeavy

CreateCopy
operator()

OEChem::OEIsHetero

CreateCopy
operator()

OEChem::OEIsHydrogen

CreateCopy
operator()

OEChem::OEIsInvertibleNitrogen

CreateCopy
operator()

OEChem::OEIsMDLStereoGroup

Constructors
CreateCopy
operator()

OEChem::OEIsMember

Add
Constructors
CreateCopy
Set
operator()
operator=

OEChem::OEIsMemberPtr

Add
Constructors
CreateCopy
Set
operator()
operator=

OEChem::OEIsMetal

CreateCopy
operator()

OEChem::OEIsNitrogen

CreateCopy
operator()

OEChem::OEIsNonRingAtomDoubleBondedToRing

CreateCopy
operator()

OEChem::OEIsomericConfTest

CombineMols
CompareMols
Constructors
CreateCopy

OEChem::OEIsOxygen

CreateCopy
operator()

OEChem::OEIsPhosphorus

CreateCopy
operator()

OEChem::OEIsPolar

CreateCopy
operator()

OEChem::OEIsPolarHydrogen

CreateCopy
operator()

OEChem::OEIsProductGroup

Constructors
CreateCopy
operator()

OEChem::OEIsReactantGroup

Constructors
CreateCopy
operator()

OEChem::OEIsReadable

OEChem::OEIsRGroup

Constructors
CreateCopy
operator()

OEChem::OEIsRotor

Constructors
CreateCopy
operator()

OEChem::OEIsRxnComponentGroup

Constructors
CreateCopy
operator()

OEChem::OEIsSDDataFormat

OEChem::OEIsSulfur

CreateCopy
operator()

OEChem::OEIsTerminalOxygen

OEChem::OEIsTerminalSulfur

OEChem::OEIsValid2DRingDictionary

OEChem::OEIsWriteable

OEChem::OEKekulize

OEChem::OELibraryGen

AddStartingMaterial
ClearStartingMaterial
Constructors
GetAssignMapIdx
GetClearCoordinates
GetExplicitHydrogens
GetProducts
GetRemoveUnmappedFragments
GetStartingMaterial
GetTitleSeparator
GetValenceCorrection
GetValidateKekule
Init
NumReactants
SetAssignMapIdx
SetClearCoordinates
SetExplicitHydrogens
SetRemoveUnmappedFragments
SetStartingMaterial
SetTitleSeparator
SetValenceCorrection
SetValidateKekule
operator bool
operator()
operator=

OEChem::OELingoSim

Constructors
GetType
Init
IsValid
SetImpl
Similarity
operator=

OEChem::OELingoType

OEChem::OELingoType::Default

OEChem::OELingoType::IsoSmiMap

OEChem::OELingoType::Undefined

OEChem::OEMacroModelAtomTypeNames

OEChem::OEMacroModelAtomTypes

OEChem::OEMacroModelTypeElement

OEChem::OEMacroModelTypeName

OEChem::OEMacroModelTypeNames

OEChem::OEMatch

AddPair
Clear
Constructors
CreateCopy
GetAtoms
GetBonds
NumAtoms
NumBonds
operator=

OEChem::OEMatchBase

Clear
CreateCopy
GetAtoms
GetBonds
GetPatternAtoms
GetPatternBonds
GetTargetAtoms
GetTargetBonds
IsValid
NumAtoms
NumBonds
operator bool

OEChem::OEMatchFunc

Constructors
CreateCopy
operator bool
operator()

OEChem::OEMatchPair

Constructors
operator=

OEChem::OEMCMolBase

ClearBase
ClearMCMol
ClearMolBase
DeleteConf
DeleteConfs
GetActive
GetConf
GetConfs
GetMCMolTitle
GetMaxConfIdx
IsDeleted
NewConf
NumConfs
OrderConfs
PopActive
PushActive
SetActive
SweepConfs
operator=

OEChem::OEMCMolType

OEChem::OEMCMolType::Cartesian

OEChem::OEMCMolType::DoubleCartesian

OEChem::OEMCMolType::FloatCartesian

OEChem::OEMCMolType::HalfFloatCartesian

OEChem::OEMCMolType::LongDoubleCartesian

OEChem::OEMCMolType::MaxType

OEChem::OEMCMolType::OEDBMCMol

OEChem::OEMCMolType::OEDefault

OEChem::OEMCMolType::Undefined

OEChem::OEMCSFunc

CreateCopy
operator()

OEChem::OEMCSMaxAtoms

CreateCopy
operator()

OEChem::OEMCSMaxAtomsCompleteCycles

Constructors
CreateCopy
operator()

OEChem::OEMCSMaxBonds

CreateCopy
operator()

OEChem::OEMCSMaxBondsCompleteCycles

Constructors
CreateCopy
operator()

OEChem::OEMCSSearch

AddConstraint
ClearConstraints
Constructors
GetMaxMatches
GetMinAtoms
GetPattern
Init
Match
SetMCSFunc
SetMaxMatches
SetMinAtoms
operator bool
operator=

OEChem::OEMCSType

OEChem::OEMCSType::Approximate

OEChem::OEMCSType::Default

OEChem::OEMCSType::Exhaustive

OEChem::OEMDLClearBondStereo

OEChem::OEMDLClearParity

OEChem::OEMDLCorrectBondStereo

OEChem::OEMDLGetParity

OEChem::OEMDLGetValence

OEChem::OEMDLHasIncorrectBondStereo

OEChem::OEMDLHasParity

OEChem::OEMDLPerceiveBondStereo

OEChem::OEMDLPerceiveParity

OEChem::OEMDLQueryOpts

OEChem::OEMDLQueryOpts::AddBondAliphaticConstraint

OEChem::OEMDLQueryOpts::AddBondTopologyConstraint

OEChem::OEMDLQueryOpts::Default

OEChem::OEMDLQueryOpts::MatchAtomStereo

OEChem::OEMDLQueryOpts::MatchIsotope

OEChem::OEMDLQueryOpts::ReactionQuery

OEChem::OEMDLQueryOpts::SuppressExplicitH

OEChem::OEMDLSetParity

OEChem::OEMDLStereoFromBondStereo

OEChem::OEMDLStereoFromParity

OEChem::OEMMFF94InitialCharges

OEChem::OEMMFF94PartialCharges

OEChem::OEMMFFAtomType

OEChem::OEMMFFAtomTypeNames

OEChem::OEMMFFAtomTypes

OEChem::OEMMFFClearRemappedElements

OEChem::OEMMFFRemapElement

OEChem::OEMMFFType

OEChem::OEMMFFType::B

OEChem::OEMMFFType::BR

OEChem::OEMMFFType::Br

OEChem::OEMMFFType::BR_

OEChem::OEMMFFType::C

OEChem::OEMMFFType::C5

OEChem::OEMMFFType::C5A

OEChem::OEMMFFType::C5B

OEChem::OEMMFFType::C__

OEChem::OEMMFFType::CA2

OEChem::OEMMFFType::CB

OEChem::OEMMFFType::CC

OEChem::OEMMFFType::CGD

OEChem::OEMMFFType::CGD_

OEChem::OEMMFFType::CIM

OEChem::OEMMFFType::CL

OEChem::OEMMFFType::Cl

OEChem::OEMMFFType::CL_

OEChem::OEMMFFType::CLO4

OEChem::OEMMFFType::CN

OEChem::OEMMFFType::CNN_

OEChem::OEMMFFType::CO

OEChem::OEMMFFType::CO2M

OEChem::OEMMFFType::CON

OEChem::OEMMFFType::CONN

OEChem::OEMMFFType::COO

OEChem::OEMMFFType::COON

OEChem::OEMMFFType::COOO

OEChem::OEMMFFType::COR

OEChem::OEMMFFType::COS

OEChem::OEMMFFType::CP

OEChem::OEMMFFType::CR

OEChem::OEMMFFType::CR3R

OEChem::OEMMFFType::CR4E

OEChem::OEMMFFType::CR4R

OEChem::OEMMFFType::CS

OEChem::OEMMFFType::CS2M

OEChem::OEMMFFType::CSN

OEChem::OEMMFFType::CSO

OEChem::OEMMFFType::CSO2

OEChem::OEMMFFType::CSP

OEChem::OEMMFFType::CSP2

OEChem::OEMMFFType::CSS

OEChem::OEMMFFType::CU1

OEChem::OEMMFFType::CU2

OEChem::OEMMFFType::DUMMY

OEChem::OEMMFFType::F

OEChem::OEMMFFType::F_

OEChem::OEMMFFType::FE2

OEChem::OEMMFFType::FE3

OEChem::OEMMFFType::H3N

OEChem::OEMMFFType::HC

OEChem::OEMMFFType::HGD_

OEChem::OEMMFFType::HIM

OEChem::OEMMFFType::HN5_

OEChem::OEMMFFType::HNC

OEChem::OEMMFFType::HNC_

OEChem::OEMMFFType::HNC__

OEChem::OEMMFFType::HNCC

OEChem::OEMMFFType::HNCN

OEChem::OEMMFFType::HNCO

OEChem::OEMMFFType::HNCS

OEChem::OEMMFFType::HNM

OEChem::OEMMFFType::HNN

OEChem::OEMMFFType::HNN_

OEChem::OEMMFFType::HNNC

OEChem::OEMMFFType::HNNN

OEChem::OEMMFFType::HNO

OEChem::OEMMFFType::HNO2

OEChem::OEMMFFType::HNOX

OEChem::OEMMFFType::HNPO

OEChem::OEMMFFType::HNR

OEChem::OEMMFFType::HNR_

OEChem::OEMMFFType::HNSO

OEChem::OEMMFFType::HO

OEChem::OEMMFFType::HO_

OEChem::OEMMFFType::HO__

OEChem::OEMMFFType::HOCC

OEChem::OEMMFFType::HOCN

OEChem::OEMMFFType::HOCO

OEChem::OEMMFFType::HOCS

OEChem::OEMMFFType::HOH

OEChem::OEMMFFType::HOM

OEChem::OEMMFFType::HON

OEChem::OEMMFFType::HOP

OEChem::OEMMFFType::HOR

OEChem::OEMMFFType::HOS

OEChem::OEMMFFType::HP

OEChem::OEMMFFType::HPD_

OEChem::OEMMFFType::HPYL

OEChem::OEMMFFType::HS

OEChem::OEMMFFType::HSE

OEChem::OEMMFFType::HSe

OEChem::OEMMFFType::HSI

OEChem::OEMMFFType::HSN

OEChem::OEMMFFType::HSP2

OEChem::OEMMFFType::HX

OEChem::OEMMFFType::I

OEChem::OEMMFFType::K

OEChem::OEMMFFType::LI

OEChem::OEMMFFType::MAXTYPE

OEChem::OEMMFFType::MG2

OEChem::OEMMFFType::N2OX

OEChem::OEMMFFType::N3OX

OEChem::OEMMFFType::N5

OEChem::OEMMFFType::N5_

OEChem::OEMMFFType::N5A

OEChem::OEMMFFType::N5A_

OEChem::OEMMFFType::N5AX

OEChem::OEMMFFType::N5B

OEChem::OEMMFFType::N5B_

OEChem::OEMMFFType::N5BX

OEChem::OEMMFFType::N5M

OEChem::OEMMFFType::N5OX

OEChem::OEMMFFType::N_

OEChem::OEMMFFType::NA

OEChem::OEMMFFType::NAZT

OEChem::OEMMFFType::NC

OEChem::OEMMFFType::NC_

OEChem::OEMMFFType::NCC

OEChem::OEMMFFType::NCC_

OEChem::OEMMFFType::NCN

OEChem::OEMMFFType::NCN_

OEChem::OEMMFFType::NCN__

OEChem::OEMMFFType::NCO

OEChem::OEMMFFType::NCP

OEChem::OEMMFFType::NCS

OEChem::OEMMFFType::NGD_

OEChem::OEMMFFType::NIM

OEChem::OEMMFFType::NM

OEChem::OEMMFFType::NN

OEChem::OEMMFFType::NN_

OEChem::OEMMFFType::NNC

OEChem::OEMMFFType::NNN

OEChem::OEMMFFType::NO

OEChem::OEMMFFType::NO2

OEChem::OEMMFFType::NO3

OEChem::OEMMFFType::NPD_

OEChem::OEMMFFType::NPO2

OEChem::OEMMFFType::NPO3

OEChem::OEMMFFType::NPOX

OEChem::OEMMFFType::NPYD

OEChem::OEMMFFType::NPYL

OEChem::OEMMFFType::NR

OEChem::OEMMFFType::NR_

OEChem::OEMMFFType::NR__

OEChem::OEMMFFType::NSO

OEChem::OEMMFFType::NSO2

OEChem::OEMMFFType::NSO3

OEChem::OEMMFFType::NSP

OEChem::OEMMFFType::O

OEChem::OEMMFFType::O2CM

OEChem::OEMMFFType::O2N

OEChem::OEMMFFType::O2NO

OEChem::OEMMFFType::O2P

OEChem::OEMMFFType::O2S

OEChem::OEMMFFType::O3N

OEChem::OEMMFFType::O3P

OEChem::OEMMFFType::O3S

OEChem::OEMMFFType::O4Cl

OEChem::OEMMFFType::O4CL

OEChem::OEMMFFType::O4P

OEChem::OEMMFFType::O4S

OEChem::OEMMFFType::O_

OEChem::OEMMFFType::O__

OEChem::OEMMFFType::OC

OEChem::OEMMFFType::OCC

OEChem::OEMMFFType::OCN

OEChem::OEMMFFType::OCN_

OEChem::OEMMFFType::OCO

OEChem::OEMMFFType::OCO_

OEChem::OEMMFFType::OCR

OEChem::OEMMFFType::OCS

OEChem::OEMMFFType::OFUR

OEChem::OEMMFFType::OH2

OEChem::OEMMFFType::OM

OEChem::OEMMFFType::OM2

OEChem::OEMMFFType::ON

OEChem::OEMMFFType::ON_

OEChem::OEMMFFType::ONO

OEChem::OEMMFFType::ONO2

OEChem::OEMMFFType::OP

OEChem::OEMMFFType::OP_

OEChem::OEMMFFType::OPO

OEChem::OEMMFFType::OPO2

OEChem::OEMMFFType::OPO3

OEChem::OEMMFFType::OR

OEChem::OEMMFFType::OS

OEChem::OEMMFFType::OS_

OEChem::OEMMFFType::OS__

OEChem::OEMMFFType::OS___

OEChem::OEMMFFType::OSMS

OEChem::OEMMFFType::OSO

OEChem::OEMMFFType::OSO2

OEChem::OEMMFFType::OSO3

OEChem::OEMMFFType::OSO_

OEChem::OEMMFFType::OXN

OEChem::OEMMFFType::P

OEChem::OEMMFFType::PC

OEChem::OEMMFFType::PO

OEChem::OEMMFFType::PO2

OEChem::OEMMFFType::PO3

OEChem::OEMMFFType::PO4

OEChem::OEMMFFType::PTET

OEChem::OEMMFFType::S

OEChem::OEMMFFType::S2CM

OEChem::OEMMFFType::SC

OEChem::OEMMFFType::SE

OEChem::OEMMFFType::Se

OEChem::OEMMFFType::SI

OEChem::OEMMFFType::SM

OEChem::OEMMFFType::SN

OEChem::OEMMFFType::SNO

OEChem::OEMMFFType::SO

OEChem::OEMMFFType::SO2

OEChem::OEMMFFType::SO2_

OEChem::OEMMFFType::SO2M

OEChem::OEMMFFType::SO2N

OEChem::OEMMFFType::SO3

OEChem::OEMMFFType::SO4

OEChem::OEMMFFType::SO_

OEChem::OEMMFFType::SP

OEChem::OEMMFFType::SSMO

OEChem::OEMMFFType::SSOM

OEChem::OEMMFFType::STHI

OEChem::OEMMFFType::UNK

OEChem::OEMMFFType::ZN2

OEChem::OEMMFFTypeIndex

OEChem::OEMMFFTypeName

OEChem::OEMMFFTypeNames

OEChem::OEMMFFTypeResult

Constructors
GetFailed
GetMMFFType

OEChem::OEMModType

OEChem::OEMModType::B2

OEChem::OEMModType::B3

OEChem::OEMModType::Ba

OEChem::OEMModType::Br

OEChem::OEMModType::C0

OEChem::OEMModType::C1

OEChem::OEMModType::c1

OEChem::OEMModType::C2

OEChem::OEMModType::c2

OEChem::OEMModType::C3

OEChem::OEMModType::CA

OEChem::OEMModType::Ca

OEChem::OEMModType::CB

OEChem::OEMModType::CC

OEChem::OEMModType::CD

OEChem::OEMModType::CE

OEChem::OEMModType::CF

OEChem::OEMModType::Cl

OEChem::OEMModType::CM

OEChem::OEMModType::Cm

OEChem::OEMModType::CP

OEChem::OEMModType::CR

OEChem::OEMModType::Cs

OEChem::OEMModType::Du

OEChem::OEMModType::F0

OEChem::OEMModType::f2

OEChem::OEMModType::f3

OEChem::OEMModType::H0

OEChem::OEMModType::H1

OEChem::OEMModType::H2

OEChem::OEMModType::H3

OEChem::OEMModType::H4

OEChem::OEMModType::H5

OEChem::OEMModType::I0

OEChem::OEMModType::K0

OEChem::OEMModType::Li

OEChem::OEMModType::Lp

OEChem::OEMModType::M2

OEChem::OEMModType::M3

OEChem::OEMModType::m3

OEChem::OEMModType::m4

OEChem::OEMModType::M4

OEChem::OEMModType::M5

OEChem::OEMModType::m5

OEChem::OEMModType::m6

OEChem::OEMModType::M6

OEChem::OEMModType::M7

OEChem::OEMModType::MAXTYPE

OEChem::OEMModType::Mg

OEChem::OEMModType::N0

OEChem::OEMModType::N1

OEChem::OEMModType::n2

OEChem::OEMModType::N2

OEChem::OEMModType::n3

OEChem::OEMModType::N3

OEChem::OEMModType::N4

OEChem::OEMModType::N5

OEChem::OEMModType::NA

OEChem::OEMModType::Na

OEChem::OEMModType::NB

OEChem::OEMModType::NC

OEChem::OEMModType::ND

OEChem::OEMModType::NE

OEChem::OEMModType::NF

OEChem::OEMModType::NG

OEChem::OEMModType::NH

OEChem::OEMModType::NI

OEChem::OEMModType::NM

OEChem::OEMModType::NP

OEChem::OEMModType::O0

OEChem::OEMModType::O2

OEChem::OEMModType::o2

OEChem::OEMModType::O3

OEChem::OEMModType::o3

OEChem::OEMModType::OA

OEChem::OEMModType::OM

OEChem::OEMModType::OP

OEChem::OEMModType::OQ

OEChem::OEMModType::OW

OEChem::OEMModType::P0

OEChem::OEMModType::Rb

OEChem::OEMModType::S0

OEChem::OEMModType::S1

OEChem::OEMModType::S2

OEChem::OEMModType::SA

OEChem::OEMModType::Si

OEChem::OEMModType::SM

OEChem::OEMModType::SP

OEChem::OEMModType::Z0

OEChem::OEMModType::Zn

OEChem::OEMol

ClearBase
ClearMCMol
ClearMolBase
Constructors
MCMol
SCMol
operator OEMCMolBase &
operator=

OEChem::OEMolBase

Clear
ClearBase
ClearCoords
Compress
Count
CreateCopy
DeleteAtom
DeleteBond
DeleteGroup
GetAtom
GetAtoms
GetBond
GetBonds
GetCoords
GetDimension
GetEnergy
GetGroup
GetGroups
GetMaxAtomIdx
GetMaxBondIdx
GetTitle
HasPerceived
IsDataType
IsDeleted
IsRxn
NewAtom
NewBond
NewGroup
NumAtoms
NumBonds
NumGroups
OrderAtoms
OrderBonds
ResetPerceived
SetCoords
SetDimension
SetEnergy
SetPerceived
SetRxn
SetTitle
Sweep
UnCompress
operator bool
operator=

OEChem::OEMolBaseType

OEChem::OEMolBaseType::MaxType

OEChem::OEMolBaseType::OEDBMol

OEChem::OEMolBaseType::OEDefault

OEChem::OEMolBaseType::OEMiniMol

OEChem::OEMolBaseType::Undefined

OEChem::OEMolDatabase

Clear
Constructors
CreateCopy
Delete
GetDataType
GetFlavor
GetFormat
GetIdx
GetIdxs
GetMaxMolIdx
GetMolecule
GetMoleculeString
GetRow
GetTitle
GetTitles
IsDataType
IsDeleted
NumMols
Open
Order
Save
WriteMolecule

OEChem::OEMolDatabaseSaveOptions

Constructors
GetFlavor
GetFormat
GetIdxFileName
GetWriteIdx
SetFlavor
SetFormat
SetIdxFileName
SetWriteIdx

OEChem::OEMolDBException

Constructors
what

OEChem::OEMolecularFormula

OEChem::oemolistream

Constructors
GetConfTest
GetMCMolBases
GetMolBases
GetNextMol
GetReadFailureCt
HasNextMol
IncrementReadFailureCt
PeekNextMol
PushNextMol
ResetReadFailureCt
SetConfTest
SetFlavor
SetFormat
SetTracer
Setgz
close
eof
getbyte
getline
openstring
operator OEPlatform::oeistream &
operator bool
peekbyte
read
rewind
seek
size
skip
skipbyte
skipline
tell

OEChem::oemolithread

Constructors
GetIStream
GetMolStream
SetFlavor
SetFormat
close
openstring

OEChem::oemolostream

Constructors
GetString
SetFlavor
SetFormat
SetString
Setgz
close
flush
openstring
operator OEPlatform::oeostream &
operator bool
put
tell
write

OEChem::oemolothread

Constructors
GetMolStream
GetOStream
GetString
SetFlavor
SetFormat
close
openstring

OEChem::oemolstreambase

ClearCSVHeader
GetBinaryIOHandler
GetCSVHeader
GetFileName
GetFlavor
GetFormat
Getgz
SetFlavor
SetFormat
close
open

OEChem::oemolthreadbase

GetMol
PeekMol
PutMol
operator bool

OEChem::OEMolToInChI

OEChem::OEMolToInChIKey

OEChem::OEMolToSmiles

OEChem::OEMolToSTDInChI

OEChem::OEMolToSTDInChIKey

OEChem::OEMultipleBondCount

OEChem::OEMutableCoords

Constructors
GetPtr
operator T *

OEChem::OENbrs

Constructors
GetBgn
GetDist
GetDist2
GetEnd

OEChem::OENearestNbrs

Constructors
GetNbrs

OEChem::OENearestNbrsMethod

OEChem::OENearestNbrsMethod::AllByAll

OEChem::OENearestNbrsMethod::Auto

OEChem::OENearestNbrsMethod::Default

OEChem::OENearestNbrsMethod::LocalHash

OEChem::OENearestNbrsMethod::ZCoordSort

OEChem::OENetCharge

OEChem::OENewMCMolBase

OEChem::OENewMolBase

OEChem::OENewQMolBase

OEChem::OENormalize

OEChem::OENthAtom

Constructors
CreateCopy
operator()

OEChem::OEOFlavor

OEChem::OEOFlavor::CAN

OEChem::OEOFlavor::CAN::AllBonds

OEChem::OEOFlavor::CAN::AtomMaps

OEChem::OEOFlavor::CAN::AtomStereo

OEChem::OEOFlavor::CAN::BondStereo

OEChem::OEOFlavor::CAN::Canonical

OEChem::OEOFlavor::CAN::DEFAULT

OEChem::OEOFlavor::CAN::Default

OEChem::OEOFlavor::CAN::ExtBonds

OEChem::OEOFlavor::CAN::Hydrogens

OEChem::OEOFlavor::CAN::ImpHCount

OEChem::OEOFlavor::CAN::Isotopes

OEChem::OEOFlavor::CAN::Kekule

OEChem::OEOFlavor::CAN::RGroups

OEChem::OEOFlavor::CAN::SmiMask

OEChem::OEOFlavor::CAN::SuperAtoms

OEChem::OEOFlavor::CDX

OEChem::OEOFlavor::CDX::Add2D

OEChem::OEOFlavor::CDX::Default

OEChem::OEOFlavor::CDX::UnsetBad2DStereo

OEChem::OEOFlavor::CSV

OEChem::OEOFlavor::CSV::Default

OEChem::OEOFlavor::CSV::DEFAULT

OEChem::OEOFlavor::CSV::Header

OEChem::OEOFlavor::FASTA

OEChem::OEOFlavor::FASTA::Default

OEChem::OEOFlavor::Generic

OEChem::OEOFlavor::Generic::AroMask

OEChem::OEOFlavor::Generic::Default

OEChem::OEOFlavor::Generic::DEFAULT

OEChem::OEOFlavor::Generic::GenericMask

OEChem::OEOFlavor::Generic::OEAroModelDaylight

OEChem::OEOFlavor::Generic::OEAroModelMDL

OEChem::OEOFlavor::Generic::OEAroModelMMFF

OEChem::OEOFlavor::Generic::OEAroModelOpenEye

OEChem::OEOFlavor::Generic::OEAroModelTripos

OEChem::OEOFlavor::Generic::Rings

OEChem::OEOFlavor::Generic::SpecificMask

OEChem::OEOFlavor::INCHI

OEChem::OEOFlavor::INCHI::Chiral

OEChem::OEOFlavor::INCHI::Default

OEChem::OEOFlavor::INCHI::FixedHLayer

OEChem::OEOFlavor::INCHI::Hydrogens

OEChem::OEOFlavor::INCHI::RacemicStereo

OEChem::OEOFlavor::INCHI::ReconnectedMetals

OEChem::OEOFlavor::INCHI::RelativeStereo

OEChem::OEOFlavor::INCHI::Stereo

OEChem::OEOFlavor::INCHI::Title

OEChem::OEOFlavor::INCHIKEY

OEChem::OEOFlavor::INCHIKEY::Chiral

OEChem::OEOFlavor::INCHIKEY::Default

OEChem::OEOFlavor::INCHIKEY::FixedHLayer

OEChem::OEOFlavor::INCHIKEY::Hydrogens

OEChem::OEOFlavor::INCHIKEY::RacemicStereo

OEChem::OEOFlavor::INCHIKEY::ReconnectedMetals

OEChem::OEOFlavor::INCHIKEY::RelativeStereo

OEChem::OEOFlavor::INCHIKEY::Stereo

OEChem::OEOFlavor::INCHIKEY::Title

OEChem::OEOFlavor::ISM

OEChem::OEOFlavor::ISM::AllBonds

OEChem::OEOFlavor::ISM::AtomMaps

OEChem::OEOFlavor::ISM::AtomStereo

OEChem::OEOFlavor::ISM::BondStereo

OEChem::OEOFlavor::ISM::Canonical

OEChem::OEOFlavor::ISM::DEFAULT

OEChem::OEOFlavor::ISM::Default

OEChem::OEOFlavor::ISM::ExtBonds

OEChem::OEOFlavor::ISM::Hydrogens

OEChem::OEOFlavor::ISM::ImpHCount

OEChem::OEOFlavor::ISM::Isotopes

OEChem::OEOFlavor::ISM::Kekule

OEChem::OEOFlavor::ISM::RGroups

OEChem::OEOFlavor::ISM::SmiMask

OEChem::OEOFlavor::ISM::SuperAtoms

OEChem::OEOFlavor::MDL

OEChem::OEOFlavor::MDL::Add2D

OEChem::OEOFlavor::MDL::CurrentParity

OEChem::OEOFlavor::MDL::Default

OEChem::OEOFlavor::MDL::DEFAULT

OEChem::OEOFlavor::MDL::MCHG

OEChem::OEOFlavor::MDL::MDLParity

OEChem::OEOFlavor::MDL::MISO

OEChem::OEOFlavor::MDL::MMask

OEChem::OEOFlavor::MDL::MRGP

OEChem::OEOFlavor::MDL::MV30

OEChem::OEOFlavor::MDL::NoParity

OEChem::OEOFlavor::MDL::PMask

OEChem::OEOFlavor::MDL::UnsetBad2DStereo

OEChem::OEOFlavor::MF

OEChem::OEOFlavor::MF::Default

OEChem::OEOFlavor::MF::DEFAULT

OEChem::OEOFlavor::MF::Title

OEChem::OEOFlavor::MMOD

OEChem::OEOFlavor::MMOD::AtomTypes

OEChem::OEOFlavor::MMOD::Default

OEChem::OEOFlavor::MMOD::DEFAULT

OEChem::OEOFlavor::MOL2

OEChem::OEOFlavor::MOL2::AllMask

OEChem::OEOFlavor::MOL2::AtomNames

OEChem::OEOFlavor::MOL2::AtomTypeNames

OEChem::OEOFlavor::MOL2::BondTypeNames

OEChem::OEOFlavor::MOL2::ChargePrecision

OEChem::OEOFlavor::MOL2::DEFAULT

OEChem::OEOFlavor::MOL2::Default

OEChem::OEOFlavor::MOL2::Forcefield

OEChem::OEOFlavor::MOL2::GeneralFFFormat

OEChem::OEOFlavor::MOL2::Hydrogens

OEChem::OEOFlavor::MOL2::NameMask

OEChem::OEOFlavor::MOL2::OrderAtoms

OEChem::OEOFlavor::MOL2::Substructure

OEChem::OEOFlavor::MOL2H

OEChem::OEOFlavor::MOL2H::AllMask

OEChem::OEOFlavor::MOL2H::AtomNames

OEChem::OEOFlavor::MOL2H::AtomTypeNames

OEChem::OEOFlavor::MOL2H::BondTypeNames

OEChem::OEOFlavor::MOL2H::Default

OEChem::OEOFlavor::MOL2H::DEFAULT

OEChem::OEOFlavor::MOL2H::Hydrogens

OEChem::OEOFlavor::MOL2H::NameMask

OEChem::OEOFlavor::MOL2H::OrderAtoms

OEChem::OEOFlavor::MOL2H::Substructure

OEChem::OEOFlavor::MOPAC

OEChem::OEOFlavor::MOPAC::AllMask

OEChem::OEOFlavor::MOPAC::CHARGES

OEChem::OEOFlavor::MOPAC::DEFAULT

OEChem::OEOFlavor::MOPAC::Default

OEChem::OEOFlavor::MOPAC::XYZ

OEChem::OEOFlavor::OEB

OEChem::OEOFlavor::OEB::Default

OEChem::OEOFlavor::PDB

OEChem::OEOFlavor::PDB::AllMask

OEChem::OEOFlavor::PDB::BasicMask

OEChem::OEOFlavor::PDB::BONDS

OEChem::OEOFlavor::PDB::BOTH

OEChem::OEOFlavor::PDB::CHARGE

OEChem::OEOFlavor::PDB::CurrentResidues

OEChem::OEOFlavor::PDB::DEFAULT

OEChem::OEOFlavor::PDB::Default

OEChem::OEOFlavor::PDB::DELPHI

OEChem::OEOFlavor::PDB::ELEMENT

OEChem::OEOFlavor::PDB::FORMALCHARGE

OEChem::OEOFlavor::PDB::HETBONDS

OEChem::OEOFlavor::PDB::NoResidues

OEChem::OEOFlavor::PDB::OEResidues

OEChem::OEOFlavor::PDB::OrderAtoms

OEChem::OEOFlavor::PDB::ORDERS

OEChem::OEOFlavor::PDB::RADIUS

OEChem::OEOFlavor::PDB::TER

OEChem::OEOFlavor::SDF

OEChem::OEOFlavor::SDF::Add2D

OEChem::OEOFlavor::SDF::CurrentParity

OEChem::OEOFlavor::SDF::DEFAULT

OEChem::OEOFlavor::SDF::Default

OEChem::OEOFlavor::SDF::MCHG

OEChem::OEOFlavor::SDF::MDLParity

OEChem::OEOFlavor::SDF::MISO

OEChem::OEOFlavor::SDF::MMask

OEChem::OEOFlavor::SDF::MRGP

OEChem::OEOFlavor::SDF::MV30

OEChem::OEOFlavor::SDF::NoParity

OEChem::OEOFlavor::SDF::PMask

OEChem::OEOFlavor::SDF::UnsetBad2DStereo

OEChem::OEOFlavor::SLN

OEChem::OEOFlavor::SLN::Default

OEChem::OEOFlavor::SMI

OEChem::OEOFlavor::SMI::AllBonds

OEChem::OEOFlavor::SMI::AtomMaps

OEChem::OEOFlavor::SMI::AtomStereo

OEChem::OEOFlavor::SMI::BondStereo

OEChem::OEOFlavor::SMI::Canonical

OEChem::OEOFlavor::SMI::DEFAULT

OEChem::OEOFlavor::SMI::Default

OEChem::OEOFlavor::SMI::ExtBonds

OEChem::OEOFlavor::SMI::Hydrogens

OEChem::OEOFlavor::SMI::ImpHCount

OEChem::OEOFlavor::SMI::Isotopes

OEChem::OEOFlavor::SMI::Kekule

OEChem::OEOFlavor::SMI::RGroups

OEChem::OEOFlavor::SMI::SmiMask

OEChem::OEOFlavor::SMI::SuperAtoms

OEChem::OEOFlavor::USM

OEChem::OEOFlavor::USM::AllBonds

OEChem::OEOFlavor::USM::AtomMaps

OEChem::OEOFlavor::USM::AtomStereo

OEChem::OEOFlavor::USM::BondStereo

OEChem::OEOFlavor::USM::Canonical

OEChem::OEOFlavor::USM::DEFAULT

OEChem::OEOFlavor::USM::Default

OEChem::OEOFlavor::USM::ExtBonds

OEChem::OEOFlavor::USM::Hydrogens

OEChem::OEOFlavor::USM::ImpHCount

OEChem::OEOFlavor::USM::Isotopes

OEChem::OEOFlavor::USM::Kekule

OEChem::OEOFlavor::USM::RGroups

OEChem::OEOFlavor::USM::SmiMask

OEChem::OEOFlavor::USM::SuperAtoms

OEChem::OEOFlavor::XYZ

OEChem::OEOFlavor::XYZ::Charges

OEChem::OEOFlavor::XYZ::Default

OEChem::OEOFlavor::XYZ::DoublePrecision

OEChem::OEOFlavor::XYZ::SinglePrecision

OEChem::OEOFlavor::XYZ::Symbols

OEChem::OEOmegaConfTest

CombineMols
CompareMols
Constructors
CreateCopy

OEChem::OEParseInChI

OEChem::OEParseSmarts

OEChem::OEParseSmiles

OEChem::OEParseSmilesOptions

Constructors
GetCanon
GetQuiet
GetStrict
SetCanon
SetQuiet
SetStrict

OEChem::OEParseSmirks

OEChem::OEPartPredT

Constructors
CreateCopy
SelectPart
operator()
operator=

OEChem::OEPDBAtomName

OEChem::OEPDBAtomName::C

OEChem::OEPDBAtomName::C10

OEChem::OEPDBAtomName::C11

OEChem::OEPDBAtomName::C12

OEChem::OEPDBAtomName::C13

OEChem::OEPDBAtomName::C14

OEChem::OEPDBAtomName::C15

OEChem::OEPDBAtomName::C16

OEChem::OEPDBAtomName::C19

OEChem::OEPDBAtomName::C1_

OEChem::OEPDBAtomName::C2

OEChem::OEPDBAtomName::C21

OEChem::OEPDBAtomName::C24

OEChem::OEPDBAtomName::C2_

OEChem::OEPDBAtomName::C2A

OEChem::OEPDBAtomName::C3

OEChem::OEPDBAtomName::C3_

OEChem::OEPDBAtomName::C4

OEChem::OEPDBAtomName::C4_

OEChem::OEPDBAtomName::C5

OEChem::OEPDBAtomName::C5_

OEChem::OEPDBAtomName::C5M

OEChem::OEPDBAtomName::C6

OEChem::OEPDBAtomName::C8

OEChem::OEPDBAtomName::CA

OEChem::OEPDBAtomName::CAnext

OEChem::OEPDBAtomName::CB

OEChem::OEPDBAtomName::CD

OEChem::OEPDBAtomName::CD1

OEChem::OEPDBAtomName::CD2

OEChem::OEPDBAtomName::CE

OEChem::OEPDBAtomName::CE1

OEChem::OEPDBAtomName::CE2

OEChem::OEPDBAtomName::CE3

OEChem::OEPDBAtomName::CG

OEChem::OEPDBAtomName::CG1

OEChem::OEPDBAtomName::CG2

OEChem::OEPDBAtomName::CH1

OEChem::OEPDBAtomName::CH2

OEChem::OEPDBAtomName::CH3

OEChem::OEPDBAtomName::CM1

OEChem::OEPDBAtomName::CM2

OEChem::OEPDBAtomName::CM5

OEChem::OEPDBAtomName::CM7

OEChem::OEPDBAtomName::Cprev

OEChem::OEPDBAtomName::CZ

OEChem::OEPDBAtomName::CZ2

OEChem::OEPDBAtomName::CZ3

OEChem::OEPDBAtomName::N

OEChem::OEPDBAtomName::N1

OEChem::OEPDBAtomName::N2

OEChem::OEPDBAtomName::N20

OEChem::OEPDBAtomName::N3

OEChem::OEPDBAtomName::N4

OEChem::OEPDBAtomName::N6

OEChem::OEPDBAtomName::N7

OEChem::OEPDBAtomName::N9

OEChem::OEPDBAtomName::ND1

OEChem::OEPDBAtomName::ND2

OEChem::OEPDBAtomName::NE

OEChem::OEPDBAtomName::NE1

OEChem::OEPDBAtomName::NE2

OEChem::OEPDBAtomName::NH1

OEChem::OEPDBAtomName::NH2

OEChem::OEPDBAtomName::Nnext

OEChem::OEPDBAtomName::NZ

OEChem::OEPDBAtomName::O

OEChem::OEPDBAtomName::O17

OEChem::OEPDBAtomName::O18

OEChem::OEPDBAtomName::O1P

OEChem::OEPDBAtomName::O2

OEChem::OEPDBAtomName::O22

OEChem::OEPDBAtomName::O23

OEChem::OEPDBAtomName::O2_

OEChem::OEPDBAtomName::O2P

OEChem::OEPDBAtomName::O3_

OEChem::OEPDBAtomName::O3P

OEChem::OEPDBAtomName::O4

OEChem::OEPDBAtomName::O4_

OEChem::OEPDBAtomName::O5_

OEChem::OEPDBAtomName::O6

OEChem::OEPDBAtomName::OD

OEChem::OEPDBAtomName::OD1

OEChem::OEPDBAtomName::OD2

OEChem::OEPDBAtomName::OE

OEChem::OEPDBAtomName::OE1

OEChem::OEPDBAtomName::OE2

OEChem::OEPDBAtomName::OE3

OEChem::OEPDBAtomName::OE4

OEChem::OEPDBAtomName::OG

OEChem::OEPDBAtomName::OG1

OEChem::OEPDBAtomName::OH

OEChem::OEPDBAtomName::OXT

OEChem::OEPDBAtomName::P

OEChem::OEPDBAtomName::SD

OEChem::OEPDBAtomName::SE_

OEChem::OEPDBAtomName::SG

OEChem::OEPDBOrderAtoms

OEChem::OEPerceiveBondOrders

OEChem::OEPerceiveChiral

OEChem::OEPerceiveCIPStereo

OEChem::OEPerceived

OEChem::OEPerceived::Aromaticity

OEChem::OEPerceived::AtomStereo

OEChem::OEPerceived::BondStereo

OEChem::OEPerceived::Chains

OEChem::OEPerceived::Chiral

OEChem::OEPerceived::Energy

OEChem::OEPerceived::Hybridization

OEChem::OEPerceived::PartialCharges

OEChem::OEPerceived::RingAtomsAndBonds

OEChem::OEPerceived::SecondaryStructure

OEChem::OEPerceiveResidues

OEChem::OEPerceiveSymmetry

OEChem::OEPRECompress

OEChem::OEPrepareSearch

OEChem::OEPreserveResInfo

OEChem::OEPreserveResInfo::All

OEChem::OEPreserveResInfo::AlternateLocation

OEChem::OEPreserveResInfo::AtomName

OEChem::OEPreserveResInfo::BFactor

OEChem::OEPreserveResInfo::ChainID

OEChem::OEPreserveResInfo::Default

OEChem::OEPreserveResInfo::FragmentNumber

OEChem::OEPreserveResInfo::HetAtom

OEChem::OEPreserveResInfo::InsertCode

OEChem::OEPreserveResInfo::None

OEChem::OEPreserveResInfo::Occupancy

OEChem::OEPreserveResInfo::ResidueName

OEChem::OEPreserveResInfo::ResidueNumber

OEChem::OEPreserveResInfo::SerialNumber

OEChem::OEPreserveRotCompress

OEChem::OEProperty

OEChem::OEProperty::Acceptor

OEChem::OEProperty::All

OEChem::OEProperty::Anisou

OEChem::OEProperty::Aromatic

OEChem::OEProperty::AroModel

OEChem::OEProperty::AtomMemberPred

OEChem::OEProperty::AtomName

OEChem::OEProperty::AtomTypeInt

OEChem::OEProperty::AtomTypes

OEChem::OEProperty::AtomTypeString

OEChem::OEProperty::BondMemberPred

OEChem::OEProperty::BondOrders

OEChem::OEProperty::BondStereo

OEChem::OEProperty::BondTypeString

OEChem::OEProperty::Both

OEChem::OEProperty::Chiral

OEChem::OEProperty::Chirality

OEChem::OEProperty::Closure

OEChem::OEProperty::ClosureBonds

OEChem::OEProperty::Component

OEChem::OEProperty::Degree

OEChem::OEProperty::Deleted

OEChem::OEProperty::DeletedAtoms

OEChem::OEProperty::DeletedBonds

OEChem::OEProperty::Dimension

OEChem::OEProperty::Donor

OEChem::OEProperty::Double