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 | X | 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
AdaptVar
OEOpt::OEAdaptor
Add
OEChem::OEAtomBondSet
OEChem::OEIsMember
OEChem::OEIsMemberPtr
OEChem::OEVectorBindings
OEMolPotential::OEForceField
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
AddConstMol
OEMedChem::OEMCSFragDatabase
AddConstraint
OEChem::OECliqueSearch
OEChem::OEMCSSearch
OEChem::OESubSearch
AddCurveSegment
OEDepict::OE2DPath
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
AddMoleculeInstance
OEMedChem::OEMatchedPairTransform
AddMoleculeTitle
OEMedChem::OEMatchedPairTransform
AddNormalizationRule
OEMolProp::OEFilter
AddPair
OEChem::OEMatch
AddParameter
OESystem::OEInterface
AddRings
OEChem::OE2DRingDictionary
AddRole
OESystem::OERoleSet
AddScore
OEShape::OEBestOverlayResults
AddSDData
OEMedChem::OEMatchedPair
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
altlocfactgroupsdoc.java
Example Code
anisou.java
Example Code
annotateatompredicate.java
Example Code
annotatebondpredicate.java
Example Code
annotatepartialcharge.java
Example Code
AnnotatePose
OEDocking::OEDock
OEDocking::OEDockBase
OEDocking::OEHybrid
OEDocking::OEScore
OEDocking::OEScoreBase
append
OEPlatform::oeofstream
appendringdict.java
Example Code
aromatic ring system identification
aromaticity.java
Example Code
asciiwriter.java
Example Code
AsRegularGrid
OESystem::OESkewGrid
assigncharges.java
Example Code
assigncharges.txt
Example Code
atom aromaticity
atom chirality
atom connection
atom degree
atom heavy degree
atom heavy valence
atom name
atom parent
atom properties
atom radius
atom ring membership
atom stereo
atom type name
atom valence
atomic hybridization
atomic number, [1]
atomic symbol
atommap.java
Example Code
AtomMatch
OEChem::OESubSearch
atompropindex.java
Example Code
atompropuser.java
Example Code
atomsubsetevil.java
Example Code
atomsubsetgood.java
Example Code
atomvisibility.java
Example Code

B

backbone.java
Example Code
bemismurckoperception.java
Example Code
bestoverlay1.java
Example Code
bestoverlay2.java
Example Code
bestoverlay3.java
Example Code
bestoverlay4.java
Example Code
bestoverlaycolor.java
Example Code
bestoverlayshapequery.java
Example Code
Beta Sheet
bfactor2img.java
Example Code
bfactor2img.txt
Example Code
Bind
OEPB::OEBind
Biopolymer Residue
BLOSUM62
bond aromaticity
bond begin atom
bond begin atom index
bond chirality
bond end atom
bond end atom index
bond index
bond order
bond parent
bond properties
bond ring membership
bond stereo, [1]
bond type name
bondpropindex.java
Example Code
bondpropuser.java
Example Code
boundentropy.java
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
CalcAtomPotentials
OEPB::OEZap
calcet.java
Example Code
CalcForces
OEPB::OEZap
CalcPotentialGrid
OEPB::OEZap
CalcSolvationEnergy
OEPB::OEZap
canonical isomeric SMILES, [1]
canonical SMILES, [1]
cansmi.java
Example Code
catmols.java
Example Code
CheckAtomTypes
OESzmap::OESzmapEngine
CheckCharges
OEProton::OEChargeEngineBase
chemblsolubility.java
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
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
cleararomaticity.java
Example Code
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
ClearConstraints
OEChem::OECliqueSearch
OEChem::OEMCSSearch
OEChem::OESubSearch
ClearCoords
OEChem::OEConfBase
OEChem::OEMolBase
ClearCSVHeader
OEChem::oemolstreambase
ClearCutoff
OEFastROCS::OEShapeDatabaseOptions
OEGraphSim::OEFPDatabase
OEGraphSim::OEFPDatabaseOptions
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
ClearNormalizationRules
OEMolProp::OEFilter
ClearPredicates
OEMolPotential::OEMolFunc
OEShape::OEHermiteShapeFunc
ClearQuerySurfaceArcFxn
OEGrapheme::OEColorOverlapDisplayOptions
OEGrapheme::OEShapeOverlapDisplayOptions
ClearRoles
OESystem::OERoleSet
ClearSDData
OEMedChem::OEMatchedPair
ClearSmarts
OEDocking::OEFeature
ClearSpheres
OEDocking::OEFeature
ClearStartingMaterial
OEChem::OELibraryGen
ClearSurfaceArcFxn
OEGrapheme::OEShapeQueryDisplayOptions
ClearTorsionConstraint
OESz::OESzybki
ClearTorsionLibrary
OEConfGen::OETorLib
ClearTracer
OEFastROCS::OEShapeDatabaseOptions
ClearUserStarts
OEFastROCS::OEShapeDatabaseOptions
OEShape::OEBestOverlay
ClearValues
OESystem::OEParameter
ClearVertexClique
OESpicoli::OESurface
cliquealign.java
Example Code
cliquesearch.java
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.java
Example Code
ColorScore
OEShape::OEColorOverlap
colorscore.java
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
compiler
complex2img.java
Example Code
complex2img.txt
Example Code
compositionfunctorsatom.java
Example Code
compositionfunctorsbond.java
Example Code
Compress
OEChem::OEMolBase
OEChem::OETrans
confboundingbox.java
Example Code
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::OEChelatorInteractionHint
OEBio::OEClashInteractionHint
OEBio::OEContactInteractionHint
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::OEIsChelatorInteractionHint
OEBio::OEIsClashInteractionHint
OEBio::OEIsContactInteractionHint
OEBio::OEIsHBondInteractionHint
OEBio::OEIsHalogenBondInteractionHint
OEBio::OEIsInterInteractionHint
OEBio::OEIsIntermolecularHBondInteractionHint
OEBio::OEIsIntraInteractionHint
OEBio::OEIsIntramolecularHBondInteractionHint
OEBio::OEIsSaltBridgeInteractionHint
OEBio::OEIsStackingInteractionHint
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::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::OEDisplayAtomIdx
OEDepict::OEDisplayAtomMapIdx
OEDepict::OEDisplayBondIdx
OEDepict::OEDisplayNoAtomProp
OEDepict::OEDisplayNoBondProp
OEDepict::OEFont
OEDepict::OEHighlightBase
OEDepict::OEHighlightByBallAndStick
OEDepict::OEHighlightByCogwheel
OEDepict::OEHighlightByColor
OEDepict::OEHighlightByLasso
OEDepict::OEHighlightByStick
OEDepict::OEHighlightOverlayBase
OEDepict::OEHighlightOverlayByBallAndStick
OEDepict::OEImage
OEDepict::OEImageBase
OEDepict::OEImageFileBase
OEDepict::OEImageFileCreatorBase
OEDepict::OEImageFrame
OEDepict::OEImageGrid
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::OEFPTypeBase
OEGraphSim::OEFPTypeParams
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::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
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::OEInterAdaptor
OEMolPotential::OEInteraction
OEMolPotential::OEQuatAdaptor
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::OEBestOverlay
OEShape::OEBestOverlayResults
OEShape::OEBestOverlayScore
OEShape::OEColorForceField
OEShape::OEColorOverlap
OEShape::OEColorResults
OEShape::OEHermite
OEShape::OEHermiteOptions
OEShape::OEHermiteShapeFunc
OEShape::OEIsColorAtomPred
OEShape::OEOverlap
OEShape::OEOverlapResults
OEShape::OEShapeQueryPublic
OESheff::OESheffield
OESheff::OESheffieldOptions
OESpicoli::OESurface
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.java
Example Code
Copy
OESystem::OEConcatIter
OESystem::OEIter
OESystem::OEIterBase
OESystem::OEPredIter
copymol.java
Example Code
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::OEChelatorInteractionHint
OEBio::OEClashInteractionHint
OEBio::OEContactInteractionHint
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::OEIsChelatorInteractionHint
OEBio::OEIsClashInteractionHint
OEBio::OEIsContactInteractionHint
OEBio::OEIsHBondInteractionHint
OEBio::OEIsHalogenBondInteractionHint
OEBio::OEIsInterInteractionHint
OEBio::OEIsIntermolecularHBondInteractionHint
OEBio::OEIsIntraInteractionHint
OEBio::OEIsIntramolecularHBondInteractionHint
OEBio::OEIsSaltBridgeInteractionHint
OEBio::OEIsStackingInteractionHint
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::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::OEIsColorAtomPred
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
createinchikey.java
Example Code
createnonstandardinchi.java
Example Code
createoegraphmol.java
Example Code
createoegraphmolfromsmiles.java
Example Code
CreatePredicateCopy
OESystem::OEBinaryPredicate
OESystem::OEUnaryPredicate
createringdict.java
Example Code
createsmilesfromoegraphmolrw.java
Example Code
createstandardinchi.java
Example Code
creatingatoms.java
Example Code
creatingatoms2.java
Example Code
Crystal Symmetry
Crystallographic Space Group
Crystallographic Unit Cell
CSV
csv2sdf.java
Example Code
cyclic membership

D

databaseextract.java
Example Code
databasesubset.java
Example Code
Daylight
Daylight SMILES
Debug
OESystem::OEErrorHandler
Delete
OEChem::OEConfBase
OEChem::OEMolDatabase
DeleteAtom
OEChem::OEGroupBase
OEChem::OEMolBase
DeleteBond
OEChem::OEGroupBase
OEChem::OEMolBase
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
DeleteSmarts
OEDocking::OEFeature
DeleteSphere
OEDocking::OEFeature
DeleteStop
OESystem::OEColorGradientBase
densomega.java
Example Code
depict.java
Example Code
depict.txt
Example Code
depictmdlquery.java
Example Code
depictmdlreaction.java
Example Code
depictmdlreactionmapidx.java
Example Code
depictmolconfigure.java
Example Code
depictmolgraph.java
Example Code
depictmolsimple.java
Example Code
depictmolsize.java
Example Code
depictmolstyle.java
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.java
Example Code
DockMultiConformerMolecule
OEDocking::OEDock
OEDocking::OEDockBase
OEDocking::OEHybrid
OEDocking::OEPosit
dots.java
Example Code
downloading
draw2dpropmappartialcharge.java
Example Code
draw2dpropmappchargemulti.java
Example Code
DrawArc
OEDepict::OEImage
OEDepict::OEImageBase
OEDepict::OEImageFrame
DrawCircle
OEDepict::OEImage
OEDepict::OEImageBase
OEDepict::OEImageFrame
drawcomplexsurface.java
Example Code
DrawCubicBezier
OEDepict::OEImage
OEDepict::OEImageBase
OEDepict::OEImageFrame
DrawLine
OEDepict::OEImage
OEDepict::OEImageBase
OEDepict::OEImageFrame
drawline.java
Example Code
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
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.java
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
altlocfactgroupsdoc.java
anisou.java
annotateatompredicate.java
annotatebondpredicate.java
annotatepartialcharge.java
appendringdict.java
aromaticity.java
asciiwriter.java
assigncharges.java
assigncharges.txt
atommap.java
atompropindex.java
atompropuser.java
atomsubsetevil.java
atomsubsetgood.java
atomvisibility.java
backbone.java
bemismurckoperception.java
bestoverlay1.java
bestoverlay2.java
bestoverlay3.java
bestoverlay4.java
bestoverlaycolor.java
bestoverlayshapequery.java
bfactor2img.java
bfactor2img.txt
bondpropindex.java
bondpropuser.java
boundentropy.java
calcet.java
cansmi.java
catmols.java
chemblsolubility.java
cleararomaticity.java
cliquealign.java
cliquesearch.java
coloroverlap.java
colorscore.java
complex2img.java
complex2img.txt
compositionfunctorsatom.java
compositionfunctorsbond.java
confboundingbox.java
convert.java
copymol.java
createinchikey.java
createnonstandardinchi.java
createoegraphmol.java
createoegraphmolfromsmiles.java
createringdict.java
createsmilesfromoegraphmolrw.java
createstandardinchi.java
creatingatoms.java
creatingatoms2.java
csv2sdf.java
databaseextract.java
databasesubset.java
densomega.java
depict.java
depict.txt
depictmdlquery.java
depictmdlreaction.java
depictmdlreactionmapidx.java
depictmolconfigure.java
depictmolgraph.java
depictmolsimple.java
depictmolsize.java
depictmolstyle.java
dockmolecules.java
dots.java
draw2dpropmappartialcharge.java
draw2dpropmappchargemulti.java
drawcomplexsurface.java
drawline.java
enumeratetautomers.java
excludedvolume.java
excludedvolume.txt
extractringtemplates.java
extractscaffold.java
filterconfs.java
findsimilarconfs.java
flexibleprotein.java
fp2oeb.java
fp2sdf.java
fpalign.java
fpatomtyping.java
fpcoverage.java
fpdata.java
fpoverlap.java
fppathlength.java
fptanimoto.java
fptype.java
fptypeparams.java
fragringchain.java
freeformconf.java
freeformconfadvanced.java
freeformconfadvrstr.java
freeformconfrstr.java
freeformsolv.java
functors.java
functorsatom.java
functorsbond.java
functorsoematch.java
functorsoepartpred.java
functorsoesubsetmol.java
generate2d.java
genericdatamol.java
genericdatamolweight.java
genericdatatoatom.java
gettingstartedwithoeinterface.java
gettitle.java
gettitles.java
highlightmulti.java
highlightoverlay.java
highlightsimple.java
highlightstyle.java
imageframe.java
imagegridautoscale.java
imagegridboxed.java
imagegriddata.java
imagegridfixedscale.java
imagegridsimple.java
javaimagebase.java
leadfilter.java
libgen.java
ligandentropy.java
ligandflexproteinnewton.java
ligandmultipleoptions.java
loopingoverbonds.java
loopingovercarbon.java
loopingovermolatomsbonds.java
loopingoverneighbors1.java
loopingoverneighbors2.java
makefastfp.java
makefastfp.txt
manipulatepdbdata.java
manipulatesddata.java
match2img.java
match2img.txt
matchedpairtransform.java
matchedpairtransformlist.java
matchedpairtransformprobe.java
maximumcommonss.java
mcs3dalign.java
mcsalign.java
mcsalign2d.java
mcsalign2d.txt
mcsfragdatabase.java
mcssoeexpropts.java
mdlquery2img.java
mdlquery2img.txt
mdlquerysearchmapping.java
mdlquerysearchsinglematch.java
mdlreaction2img.java
mdlreaction2img.txt
memsimsearch.java
minpath.java
mol2img.java
mol2img.txt
mol2nam_example.java
molbasetype.java
molcount.java
molextract.java
molfind.java
molgrep.java
molpropsddata.java
molproptable.java
mols2img.java
mols2img.txt
mols2pdf.java
mols2pdf.txt
molstats.java
multicoremolfind.java
multipage.java
multipagereport.java
nam2mol_example.java
neutralionization.java
newconffromcoords.java
normalization.java
nthmolecule.java
nxnshape.java
oecheminfo.java
oegetbemismurcko.java
oegetsmistringorder.java
oegraphmolfromsmilesaromatic.java
oegraphmolfromsmilescheck.java
oemedcheminfo.java
oemolstream.java
oemoltosmiles.java
oemoltosmilesrw.java
parts2mols.java
pathfptype.java
perceivearomringsystems.java
pipelinemolfind.java
posemolecules.java
posemolswithbestreceptor.java
posemolswithmultireceptors.java
printatomnames.java
printatomstereo.java
printbondstereo.java
printcipatomstereo.java
printcipbondstereo.java
printinteractions.java
proteinligandpb.java
proteinmultipleoptions.java
proteinprep.java
quietfilter.java
randomizeatoms.java
randomsample.java
reactionsnonunique.java
reactionsreactanttrace.java
reactionsrxn.java
reactionsusingexplh.java
reactionsusingimplh.java
reactionsusingvalencecorr.java
readinmulticonf.java
readmolintomemory.java
readwritecommandlineargs.java
readwritecompressedfiles.java
readwriteflavors.java
readwritesettingformats.java
readwritestdinstdoutformatc.java
readwritetofiles.java
rescore.java
rescoreposes.java
rescountdoc.java
reusemolecule.java
reusemoleculeclear.java
reusemoleculeoesmilestomol.java
reverseiteration.java
ringdict2pdf.java
ringdict2pdf.txt
ringsubset.java
rmsd.java
rotorcount.java
scalargridctor.java
sdf2csv.java
sdf2fp.java
sdfilter.java
sdfmodprops.java
sdfrename.java
searchfastfp.java
searchfastfp.txt
searchfp.java
searchfp.txt
setatomstereo.java
setbondstereo.java
setreasonablechargestate.java
shapeoverlap2pdf.java
shapeoverlap2pdf.txt
shapeprops.java
simcalcfromfile.java
simpleconformer.java
simplenewton.java
simpleomega.java
simpleomicron.java
simpleoverlap.java
simpleprotein.java
simplerescountdoc.java
simplevacuum.java
sizefilter.java
smartsalign.java
smartsalign2d.java
smartsalign2d.txt
solutionentropy.java
specificmolprop.java
splitmolcomplex.java
splitmolcomplexfrags.java
splitmolcomplexlowlevel.java
stereoandtorsion.java
stripsalts.java
subsearchalign.java
substructuresearch.java
threadedmolfind.java
translate_example.java
unimolrxn.java
uniqinchi.java
uniqmol.java
usercolor.java
userpredatom.java
userpredatomarg.java
userpredbond.java
usingoeinterfacedefaults.java
usingoeinterfacehas.java
usingoeinterfacehelp.java
usingoeinterfacekeyless.java
usingoeinterfacelist.java
usingoeinterfacerequired.java
viewmdlsearch.java
viewmdlsearch.txt
writecsv.java
xyzwriter.java
zapatoms1.java
zapbind.java
zapfocussing.java
zapforces.java
zapgrid1.java
zapgrid2.java
zapgrid3.java
zapsolv1.java
zaptransfer.java
excludedvolume.java
Example Code
excludedvolume.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.java
Example Code
extractscaffold.java
Example Code

F

Factory
OESystem::OEInterface
Fatal
OESystem::OEErrorHandler
fd
OEPlatform::oeifstream
OEPlatform::oeofstream
file formats
FileName
OEPlatform::OEFile
filterconfs.java
Example Code
FindSimilarConfs
OESz::OEFreeFormConf
findsimilarconfs.java
Example Code
fingerprint
FirstBit
OESystem::OEBitVector
FixAtoms
OESz::OESzybki
flexibleprotein.java
Example Code
flush
OEChem::oemolostream
OEPlatform::oeostream
formal charge, [1]
FoundInDB
OEBio::OEResidueCategoryData
fp2oeb.java
Example Code
fp2sdf.java
Example Code
fpalign.java
Example Code
fpatomtyping.java
Example Code
fpcoverage.java
Example Code
fpdata.java
Example Code
fpoverlap.java
Example Code
fppathlength.java
Example Code
fptanimoto.java
Example Code
fptype.java
Example Code
fptypeparams.java
Example Code
fragringchain.java
Example Code
freeformconf.java
Example Code
freeformconfadvanced.java
Example Code
freeformconfadvrstr.java
Example Code
freeformconfrstr.java
Example Code
freeformsolv.java
Example Code
FromHexString
OESystem::OEBitVector
FromIndex
OEMedChem::OEMatchedPair
FromSmiles
OEMedChem::OEMatchedPair
Full
OESystem::OEBoundedBuffer
OESystem::OEUnboundedBuffer
Functor
functors.java
Example Code
functorsatom.java
Example Code
functorsbond.java
Example Code
functorsoematch.java
Example Code
functorsoepartpred.java
Example Code
functorsoesubsetmol.java
Example Code

G

g++
Gasteiger charge
gcc
generate2d.java
Example Code
genericdatamol.java
Example Code
genericdatamolweight.java
Example Code
genericdatatoatom.java
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
GetAddDepictionHydrogens
OEDepict::OEAlignmentOptions
OEDepict::OEPrepareDepictionOptions
GetAddMetadata
OEBio::OEPlaceHydrogensOptions
GetAddRGroup
OEBio::OESplitMolComplexOptions
GetAdjustHCount
OEBio::OESplitMolComplexOptions
GetAliases
OESystem::OEParameter
GetAlignment
OEDepict::OEFont
GetAllColor
OEShape::OEBestOverlay
OEShape::OEColorOverlap
GetAlpha
OEBio::OECrystalSymmetryParams
OEGraphSim::OETverskySim
OEMedChem::OEMCSTverskySim
GetAltAtoms
OEBio::OEAltLocationFactory
GetAlternateLocation
OEChem::OEResidue
GetAltsMustBeCompatible
OEBio::OEPlaceHydrogensOptions
GetAmberTerms
OEFF::OEMMFFAmberOptions
GetAnalyticCoulombicBindingEnergy
OEPB::OEBindResults
GetAngle
OEBio::OEPlaceHydrogensMoverNote
OESz::OETorsionScanResult
GetAngles
OEChem::OEEuler
GetApplyWarts
OEProton::OETautomerOptions
GetArea
OEPB::OEArea
GetArg
OEPlatform::OEThread
GetAromaticStyle
OEDepict::OE2DMolDisplayOptions
GetAssignMapIdx
OEChem::OELibraryGen
GetAssumptions
OEBio::OESplitMolComplexOptions
GetAtom
OEBio::OEHierChain
OEBio::OEHierFragment
OEBio::OEHierResidue
OEBio::OEHierView
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
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
GetAtomList
OEChem::OEMolBase
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
GetAtomTypeIndex
OEMolPotential::OEFFParams
GetAtomTypeName
OEMolPotential::OEFFParams
GetAtomTypes
OEGraphSim::OEFPTypeParams
GetAtomVisibilityFunctor
OEDepict::OE2DMolDisplayOptions
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
GetBindingEnergy
OEPB::OESimpleBindResults
GetBodies
OEDepict::OEReport
GetBody
OEDepict::OEReport
GetBond
OEChem::OEAtomBase
OEChem::OEMolBase
OEDepict::OEBondDisplayBase
OEDepict::OENearestBond
GetBondColorStyle
OEDepict::OE2DMolDisplayOptions
GetBondDisplay
OEDepict::OE2DMolDisplay
GetBondDisplays
OEDepict::OE2DMolDisplay
GetBondLineAtomLabelGapScale
OEDepict::OE2DMolDisplayOptions
GetBondLineGapScale
OEDepict::OE2DMolDisplayOptions
GetBondList
OEChem::OEMolBase
GetBondMapSize
OEBio::OEAltLocationFactory
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
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
GetCategorizer
OEBio::OESplitMolComplexOptions
GetCavitySolventParameter
OESz::OESzybkiSolventOptions
GetCell
OEDepict::OEImageGrid
OEDepict::OEReport
GetCellGap
OEDepict::OEImageGrid
OEDepict::OEReportOptions
GetCellHeight
OEDepict::OEImageGrid
OEDepict::OEReport
OEDepict::OEReportOptions
GetCells
OEDepict::OEImageGrid
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
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
OEGrapheme::OEResidueSVGMarkupBase
OEGrapheme::OEResidueSVGNoMarkup
OEGrapheme::OEResidueSVGStandardMarkup
GetClearBackground
OEGrapheme::OEColorOverlapDisplayOptions
OEGrapheme::OEShapeOverlapDisplayOptions
OEGrapheme::OEShapeQueryDisplayOptions
GetClearCoordinates
OEChem::OELibraryGen
OEChem::OEUniMolecularRxn
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::OEShapeQueryPublic
GetColorForceFieldType
OEFastROCS::OEShapeDatabase
GetColorGridSpacing
OEFastROCS::OEShapeDatabase
GetColors
OEDepict::OEHighlightOverlayBase
OESystem::OEGaussianContainer
OESystem::OEGaussianContainerBase
GetColorScore
OEFastROCS::OEShapeDatabaseScore
GetColorStopLabelFont
OEGrapheme::OEColorGradientDisplayOptions
GetColorStopLabelFontScale
OEGrapheme::OEColorGradientDisplayOptions
GetColorStopPrecision
OEGrapheme::OEColorGradientDisplayOptions
GetColorTanimoto
OEFastROCS::OEShapeDatabaseScore
OEShape::OEBestOverlayScore
GetColorTversky
OEFastROCS::OEShapeDatabaseScore
OEShape::OEBestOverlayScore
GetColorTypes
OEGrapheme::OEColorForceFieldDisplay
GetColumnName
OEChem::OECSVHeader
GetColumnNames
OEChem::OECSVHeader
GetCombinedFilter
OEBio::OESplitMolComplexOptions
GetComboScore
OEShape::OEBestOverlayScore
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
GetComponentType
OEBio::OEInteractionHintFragment
GetConf
OEChem::OEMCMolBase
OEPB::OESimpleBindResults
GetConfFreeEnergyFromEnsemble
OESz::OESzybkiResults
GetConfGenRMS
OESz::OEFreeFormSolvOptions
GetConfIdx
OEFastROCS::OEShapeDatabaseScore
OESz::OESingleConfResult
OESz::OESzybkiResults
GetConfigurationalEntropy
OESz::OESzybkiEnsembleResults
GetConfList
OEChem::OEMCMolBase
OEChem::OEMol
GetConfResult
OESz::OEFreeFormConfResults
GetConfs
OEChem::OEMCMolBase
GetConfTest
OEChem::oemolistream
GetConsiderAtomLabelBoundingBox
OEDepict::OEHighlightByLasso
GetContactDistance
OEMolPotential::OEFFParams
GetContext
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
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
GetDepictOrientation
OEDepict::OEPrepareDepictionOptions
OEGrapheme::OEShapeQueryDisplayOptions
GetDepth
OEGrapheme::OEComplexSurfaceArcFxnBase
GetDescendingOrder
OEGraphSim::OEFPDatabase
OEGraphSim::OEFPDatabaseOptions
GetDesolvationEnergy
OEPB::OEBindResults
GetDetail
OESystem::OEInterface
OESystem::OEParameter
GetDielectric
OEConfGen::OEOmegaOptions
OEMolMMFF::OEMMFFCoulomb
OEPB::OEET
GetDielectricDerivative
OESheff::OESheffield
GetDielectricModel
OEPB::OEZap
GetDim
OESystem::OEGridAbstractBase
OESystem::OEGridBase
OESystem::OESkewGrid
GetDimension
OEChem::OEMolBase
GetDisplayedLigand
OEGrapheme::OE2DActiveSiteDisplay
GetDisplayedResidues
OEGrapheme::OE2DActiveSiteDisplay
GetDisplayPos
OEDepict::OE2DBondDisplay
GetDisplayPosition
OEDepict::OENearestAtom
OEDepict::OENearestBond
OEGrapheme::OENearestResidue
GetDisplayType
OEDepict::OE2DBondDisplay
GetDist
OEDepict::OENearestAtom
OEDepict::OENearestBond
OEGrapheme::OENearestResidue
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
GetEndAngle
OEGrapheme::OESurfaceArc
GetEndFragment
OEBio::OEInteractionHint
GetEndIdx
OEChem::OEBondBase
GetEndPen
OEDepict::OE2DBondDisplay
GetEnergy
OEChem::OEMolBase
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
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
GetFitColorTversky
OEShape::OEBestOverlayScore
GetFitTversky
OEShape::OEBestOverlayScore
OEShape::OEColorResults
OEShape::OEOverlapResults
GetFitTverskyCombo
OEShape::OEBestOverlayScore
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
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
GetGrid
OEMolMMFF::OEMMFFInterCoulomb
GetGridBuffer
OEPB::OEET
GetGridSpacing
OEPB::OEET
OEPB::OEZap
OEShape::OEOverlap
GetGroup
OEBio::OEAltLocationFactory
OEChem::OEMolBase
GetGroupCount
OEBio::OEAltGroup
OEBio::OEAltLocationFactory
GetGroupDefinition
OEChem::OEGroupBase
GetGroupID
OEBio::OEAltGroup
OEBio::OEAltLocation
GetGroupId
OEGrapheme::OEResidueSVGMarkupBase
OEGrapheme::OEResidueSVGNoMarkup
OEGrapheme::OEResidueSVGStandardMarkup
GetGroupList
OEChem::OEMolBase
GetGroups
OEBio::OEAltLocationFactory
OEChem::OEMolBase
GetGroupType
OEChem::OEGroupBase
Getgz
OEChem::oemolstreambase
GetHandle
OEShape::OEOverlap
GetHarmonicConstraints
OESz::OESzybki
GetHasDefault
OESystem::OEParameter
GetHasValue
OESystem::OEParameter
GetHBondType
OEBio::OEHBondInteractionHint
GetHCount
OEDepict::OE2DAtomDisplay
GetHeader
OEDepict::OEReport
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
GetHistory
OESystem::OEHeader
GetHPosition
OEDepict::OE2DAtomDisplay
GetHvyDegree
OEChem::OEAtomBase
GetHvyValence
OEChem::OEAtomBase
GetHyb
OEChem::OEAtomBase
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
GetInertialAxialDivisions
OEShape::OEBestOverlay
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
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
GetIStream
OEChem::oemolithread
GetIterations
OEPB::OEZap
GetJoin
OEPB::OEET
GetKeepHessian
OEOpt::OEBFGSOpt
GetKeyless
OESystem::OEParameter
GetLabel
OEBio::OEPlaceHydrogensMoverNote
OEDepict::OE2DAtomDisplay
OEGrapheme::OEColorGradientLabel
GetLabelFont
OEDepict::OE2DAtomDisplay
GetLabels
OEGrapheme::OEColorGradientDisplayOptions
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
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
GetMarkedValuePen
OEGrapheme::OEColorGradientDisplayOptions
GetMarkedValuePrecision
OEGrapheme::OEColorGradientDisplayOptions
GetMarkedValues
OEGrapheme::OEColorGradientDisplayOptions
GetMaskCutoff
OESzmap::OESzmapEngineOptions
GetMass
OEDepict::OE2DAtomDisplay
GetMatchedPairContext
OEMedChem::OEMatchedPairTransform
GetMatchedPairs
OEMedChem::OEMatchedPairTransform
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
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
GetMaxDisplacement
OESz::OESzybkiResults
GetMaxDistance
OEGraphSim::OEFPTypeParams
GetMaxDonorAngle
OEBio::OEPerceiveInteractionOptions
GetMaxFragLimit
OEMedChem::OEMCSFragDatabaseOptions
GetMaxHalogenAngle
OEBio::OEPerceiveInteractionOptions
GetMaxHalogenBondDistance
OEBio::OEPerceiveInteractionOptions
GetMaxHBondDistance
OEBio::OEPerceiveInteractionOptions
GetMaxHeavyAtom
OEBio::OELigandInteractionHintComponent
GetMaxIter
OESz::OESzybkiOptOptions
GetMaxLigAtoms
OEBio::OEMolComplexCategorizer
GetMaxLigResidues
OEBio::OEMolComplexCategorizer
GetMaxMatches
OEChem::OECliqueSearch
OEChem::OEMCSSearch
OEChem::OESubSearch
GetMaxMetalBondDistance
OEBio::OEPerceiveInteractionOptions
GetMaxMolIdx
OEChem::OEMolDatabase
OEMedChem::OEMCSFragDatabase
GetMaxNumDevices
OEFastROCS::OEShapeDatabase
GetMaxOptIterations
OEFastROCS::OEShapeDatabase
GetMaxOverlays
OEFastROCS::OEShapeDatabaseOptions
GetMaxPatternMatches
OEDepict::OEAlignmentOptions
GetMaxPeptideResidues
OEBio::OEMolComplexCategorizer
GetMaxPiStackAngle
OEBio::OEPerceiveInteractionOptions
GetMaxPiStackDistance
OEBio::OEPerceiveInteractionOptions
GetMaxProteinAtoms
OEBio::OEMolComplexCategorizer
GetMaxRandomTranslation
OEShape::OEBestOverlay
GetMaxRotors
OEConfGen::OEOmegaOptions
GetMaxSaltBridgeDistance
OEBio::OEPerceiveInteractionOptions
GetMaxSearchTime
OEConfGen::OEOmegaOptions
OEProton::OETautomerOptions
GetMaxSeqIdx
OEBio::OESequenceAlignment
GetMaxSubstateCutoff
OEBio::OEPlaceHydrogensOptions
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
GetMCSSimTypeString
OEMedChem::OEMCSSimFuncBase
OEMedChem::OEMCSTanimotoSim
OEMedChem::OEMCSTverskySim
GetMethod
OEBio::OESequenceAlignment
OEPB::OEArea
OEShape::OEBestOverlay
OEShape::OEOverlap
GetMid
OESystem::OEGridAbstractBase
OESystem::OEGridBase
OESystem::OESkewGrid
GetMinAtoms
OEChem::OECliqueSearch
OEChem::OEMCSSearch
GetMinColor
OESystem::OEColorGradientBase
GetMinContactFraction
OEBio::OEPerceiveInteractionOptions
GetMinDistance
OEGraphSim::OEFPTypeParams
GetMinFontSize
OEDepict::OEImageBase
GetMinFragLimit
OEMedChem::OEMCSFragDatabaseOptions
GetMinHBondContactFraction
OEBio::OEPerceiveInteractionOptions
GetMinimizeType
OEShape::OEBestOverlay
GetMinLigAtoms
OEBio::OEMolComplexCategorizer
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
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
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
GetNumFixAtoms
OESz::OESzybkiResults
GetNumFlips
OEBio::OEPlaceHydrogensDetails
GetNumGrids
OESystem::OEFixedMultiGrid
GetNumHeavyAtomStarts
OEFastROCS::OEShapeDatabaseOptions
GetNumHydrogensStandardized
OEBio::OEPlaceHydrogensDetails
GetNumInertialStarts
OEFastROCS::OEShapeDatabaseOptions
GetNumMovers
OEBio::OEPlaceHydrogensDetails
GetNumOpenThreads
OEFastROCS::OEShapeDatabase
GetNumProcessors
OEGraphSim::OECreateFastFPDatabaseOptions
GetNumRandomStarts
OEShape::OEBestOverlay
GetNumRotors
OESz::OESzybkiResults
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::OEReport
OEGrapheme::OE2DActiveSiteDisplay
OEMedChem::OEMCSFragDatabase
OEMedChem::OEMCSFragDatabaseOptions
OEMedChem::OEMatchedPairAnalyzer
OEMedChem::OEMatchedPairAnalyzerOptions
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
GetOverlapColor
OEGrapheme::OEShapeOverlapDisplayOptions
GetOverlapDisplayStyle
OEGrapheme::OEShapeOverlapDisplayOptions
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
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
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
GetRad
OEDocking::OESphereBase
GetRadical
OEDepict::OE2DAtomDisplay
GetRadiiApproximation
OEShape::OEBestOverlay
OEShape::OEOverlap
GetRadius
OEChem::OEAtomBase
OEGrapheme::OESurfaceArc
GetRadiusRatio
OEGrapheme::OE2DPropMap
GetRandomSeed
OEShape::OEBestOverlay
GetRangeIncrement
OEConfGen::OEOmegaOptions
GetRankTautomers
OEProton::OETautomerOptions
GetReadFailureCt
OEChem::oemolistream
GetReadFxns
OESystem::OEBinaryIOHandler
OESystem::OEBinaryIOHandlerBase
GetReconnectedMetals
OEChem::OEInChIOptions
GetReentrant
OESystem::OESkewGrid
GetRefColorTversky
OEShape::OEBestOverlayScore
GetReferenceCoords
OEBio::OEPlaceHydrogensMoverNote
GetRefGrid
OEShape::OEBestOverlay
GetRefMol
OEShape::OEBestOverlay
GetRefSelfColor
OEShape::OEBestOverlay
GetRefSymmetry
OEShape::OEBestOverlay
GetRefTversky
OEShape::OEBestOverlayScore
OEShape::OEColorResults
OEShape::OEOverlapResults
GetRefTverskyCombo
OEShape::OEBestOverlayScore
GetRelativeEnergy
OESz::OESingleConfResult
GetRelLnQ
OESz::OESingleConfResult
GetRemoveAttractiveVdWForces
OESz::OESzybkiGeneralOptions
GetRemoveCoulombTerms
OESz::OESzybkiGeneralOptions
GetRemoveUnmappedFragments
OEChem::OELibraryGen
GetRenderHint
OESystem::OEAnnotation
GetRepairRequestedHint
OEProton::OEChargeEngineBase
GetRepresentationLevel
OEShape::OEBestOverlay
OEShape::OEOverlap
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
GetResultsForConformations
OESz::OEFreeFormConfResults
OESz::OESzybkiEnsembleResults
GetRetainBondStereo
OEChem::OEExtractRingTemplateOptions
GetRetainExistingTemplates
OEChem::OEExtractRingTemplateOptions
GetReturn
OEPlatform::OEThread
GetReturnCode
OESz::OEFreeFormSolvResults
GetReturnSelectedConfs
OEProton::OEELFCharges
GetRGBA
OESystem::OEColor
GetRingFragLimit
OEMedChem::OEMCSFragDatabaseOptions
GetRMSD
OEDepict::OEAlignmentResult
OESz::OESzybkiResults
GetRMSDCutoff
OEDepict::OEAlignmentOptions
GetRMSRange
OEConfGen::OEOmegaOptions
GetRMSThreshold
OEConfGen::OEOmegaOptions
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
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
GetScore
OEBio::OEPlaceHydrogensMoverNote
OEBio::OESequenceAlignment
OEFastROCS::OEShapeDatabaseScore
OEGraphSim::OESimScore
OEMedChem::OEMCSMolSimScore
GetScores
OEFastROCS::OEShapeDatabase
OEGraphSim::OEFPDatabase
OEMedChem::OEMCSFragDatabase
OEShape::OEBestOverlayResults
GetScoreType
OEFastROCS::OEShapeDatabaseOptions
GetSDData
OEMedChem::OEMatchedPair
GetSDEnergy
OEConfGen::OEOmegaOptions
GetSDTag
OEMolProp::OEFilter
GetSearchForceField
OEConfGen::OEOmegaOptions
GetSecondaryStructure
OEChem::OEResidue
GetSeed
OESystem::OERandom
GetSelfColor
OEShape::OEColorOverlap
GetSelfOverlap
OEShape::OEHermite
GetSeparateResidues
OEBio::OESplitMolComplexOptions
GetSequenceIdentity
OEBio::OESequenceAlignment
GetSequenceSimilarity
OEBio::OESequenceAlignment
GetSerialNumber
OEChem::OEResidue
GetSetting
OESystem::OETypedParameter
GetSettings
OESystem::OETypedParameter
GetShapeGridSpacing
OEFastROCS::OEShapeDatabase
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
GetSize
OEDepict::OEFont
OESystem::OEBaseData
OESystem::OEBaseDataT
OESystem::OEBitVector
OESystem::OEGridAbstractBase
OESystem::OEGridBase
OESystem::OESkewGrid
GetSizeLimit
OEProton::OEAM1BCCCharges
OEProton::OEAM1Charges
GetSmallStep
OESystem::OEDots
GetSmarts
OEDocking::OEFeature
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
GetStartingMaterial
OEChem::OELibraryGen
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
GetStyle
OEDepict::OEFont
GetSuperAtomLabelFont
OEDepict::OE2DMolDisplayOptions
GetSuperAtomStyle
OEDepict::OE2DMolDisplayOptions
GetSuppressHydrogens
OEDepict::OEAlignmentOptions
OEDepict::OEPrepareDepictionOptions
OEGrapheme::OEAlignedDepictionFrom3DOptions
OEGrapheme::OEDepictionFrom3DOptions
GetSurfaceArcFxn
OEGrapheme::OEShapeQueryDisplayOptions
GetSVGClass
OEDepict::OEImageBase
GetSVGGroup
OEDepict::OEImageBase
GetSymmetrize
OEProton::OEAM1BCCCharges
OEProton::OEAM1Charges
GetSymmetryClass
OEChem::OEAtomBase
GetSymmetryThreshold
OEShape::OEBestOverlay
GetSzybkiGeneralOptions
OESz::OEFreeFormConfOptions
GetTable
OEMolProp::OEFilter
GetTag
OEChem::OESDDataPair
OESystem::OEBaseData
GetTanimoto
OEShape::OEColorResults
GetTanimotoCombo
OEFastROCS::OEShapeDatabaseScore
OEShape::OEBestOverlayScore
GetTargetAtoms
OEChem::OEMatchBase
GetTargetBonds
OEChem::OEMatchBase
GetTemperature
OESz::OEFreeFormConfResults
OESz::OESzybkiEnsembleResults
OESz::OESzybkiGeneralOptions
GetText
OESystem::OEColor
GetTheta
OEChem::OEEuler
gettingstartedwithoeinterface.java
Example Code
GetTitle
OEBio::OEInteractionHintContainer
OEChem::OEConfBase
OEChem::OEMolBase
OEChem::OEMolDatabase
OEGrapheme::OEShapeOverlapDisplay
OEGrapheme::OEShapeQueryDisplay
OEShape::OEColorForceField
OEShape::OEShapeQueryPublic
OESpicoli::OESurface
OESystem::OEAnnotation
OESystem::OEGridAbstractBase
OESystem::OEGridBase
OESystem::OESkewGrid
gettitle.java
Example Code
GetTitleFont
OEDepict::OE2DMolDisplayOptions
GetTitleFontScale
OEDepict::OE2DMolDisplayOptions
GetTitleHeight
OEDepict::OE2DMolDisplayOptions
GetTitleLocation
OEDepict::OE2DMolDisplayOptions
GetTitles
OEChem::OEMolDatabase
gettitles.java
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
GetTriangle
OESpicoli::OESurface
GetTriangles
OESpicoli::OESurface
GetTrianglesElement
OESpicoli::OESurface
GetTversky
OEShape::OEBestOverlayScore
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
GetUnitCell
OESystem::OESkewGrid
GetUseExternalCharges
OEFF::OEMMFFAmberOptions
GetUseHydrogens
OEPB::OEArea
OEShape::OEBestOverlay
OEShape::OEOverlap
GetUseInput3D
OESz::OEFreeFormSolvOptions
GetUseInputEnsemble
OESz::OEFreeFormConfOptions
OESz::OEFreeFormSolvOptions
GetUseMMFF94s
OEFF::OEMMFFAmberOptions
OEFF::OEMMFFIEFFOptions
GetUseOptimalLambdas
OEShape::OEHermiteOptions
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
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
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
HasCompareMols
OEChem::OEConfTestBase
OEChem::OEDefaultConfTest
HasCutoff
OEFastROCS::OEShapeDatabaseOptions
OEGraphSim::OEFPDatabase
OEGraphSim::OEFPDatabaseOptions
HasCutoffGT
OEFastROCS::OEShapeDatabaseOptions
HasCutoffLT
OEFastROCS::OEShapeDatabaseOptions
HasData
OESystem::OEBase
HasEntropy
OESz::OESzybkiEnsembleResults
HasFlexibleResidues
OESz::OESzybkiProteinOptions
HasFlippedBadClusterClash
OEBio::OEPlaceHydrogensMoverNote
HasHyperlink
OEDepict::OEFont
HasIndexableFragmentHeavyAtomRange
OEMedChem::OEMCSFragDatabaseOptions
OEMedChem::OEMatchedPairAnalyzerOptions
HasInteraction
OEBio::OEInteractionHintContainer
HasLabel
OEDepict::OE2DAtomDisplay
HasMatchedPair
OEMedChem::OEMatchedPairTransform
HasNextMol
OEChem::oemolistream
HasOriginalBadClusterClash
OEBio::OEPlaceHydrogensMoverNote
HasPerceived
OEChem::OEMolBase
HasProperty
OEDepict::OE2DAtomDisplay
OEDepict::OE2DBondDisplay
HasRole
OESystem::OERoleSet
HasSDData
OEMedChem::OEMatchedPair
HasSpaceGroup
OESystem::OESkewGrid
HasStereoSpecified
OEChem::OEAtomBase
OEChem::OEBondBase
HasTitle
OEChem::OEConfBase
HasUnitCell
OESystem::OESkewGrid
HBonds OEPlaceHydrogens
Helix
Hierarchical View
highlightmulti.java
Example Code
highlightoverlay.java
Example Code
highlightsimple.java
Example Code
highlightstyle.java
Example Code

I

IdentifyConformer
OESz::OEFreeFormConfAdvanced
imageframe.java
Example Code
imagegridautoscale.java
Example Code
imagegridboxed.java
Example Code
imagegriddata.java
Example Code
imagegridfixedscale.java
Example Code
imagegridsimple.java
Example Code
implicit hydrogens
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
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
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::OEChelatorInteractionHint
OEBio::OEClashInteractionHint
OEBio::OEContactInteractionHint
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::OENearestResidue
OEGrapheme::OEShapeOverlapDisplay
OEGrapheme::OEShapeQueryDisplay
OEProton::OEChargeEngineBase
IsValid()
OEMolProp::OEXLogPResult
IsVertexCliqueSet
OESpicoli::OESurface
IsVisible
OEDepict::OEAtomDisplayBase
OEDepict::OEBondDisplayBase
IsWritable
OEPlatform::OEFile
IsXMidSet
OESystem::OEGridBase
IsYMidSet
OESystem::OEGridBase
IsZMidSet
OESystem::OEGridBase
itf interface definition specification

J

javaimagebase.java
Example Code
Join
OEPlatform::OEThread

K

Kekule form
Kekule SMILES
kekulization

L

Lap
OESystem::OECycleTimer
OESystem::OEStopwatch
OESystem::OEWallTimer
LastBit
OESystem::OEBitVector
leadfilter.java
Example Code
length
OEPlatform::oestream
libgen.java
Example Code
licensing
ligandentropy.java
Example Code
ligandflexproteinnewton.java
Example Code
ligandmultipleoptions.java
Example Code
LINGO, [1]
Linux
Load
OESystem::OEParameter
LoadDefault
OESystem::OEParameter
LoadPotentialGrid
OESz::OESzybki
LoadValue
OESystem::OEParameter
loopingoverbonds.java
Example Code
loopingovercarbon.java
Example Code
loopingovermolatomsbonds.java
Example Code
loopingoverneighbors1.java
Example Code
loopingoverneighbors2.java
Example Code

M

MACCS
make
MakeAltMol
OEBio::OEAltLocationFactory
MakeCurrentAltMol
OEBio::OEAltLocationFactory
makefastfp.java
Example Code
makefastfp.txt
Example Code
Makefile
MakePrimaryAltMol
OEBio::OEAltLocationFactory
Manhattan
similarity measure
manipulatepdbdata.java
Example Code
manipulatesddata.java
Example Code
marching cubes
Match
OEChem::OECliqueSearch
OEChem::OEMCSSearch
OEChem::OESubSearch
match2img.java
Example Code
match2img.txt
Example Code
matchedpairtransform.java
Example Code
matchedpairtransformlist.java
Example Code
matchedpairtransformprobe.java
Example Code
maximum atom index
maximum bond index
maximum common substructure search
maximumcommonss.java
Example Code
MCMol
OEChem::OEMol
mcs3dalign.java
Example Code
mcsalign.java
Example Code
mcsalign2d.java
Example Code
mcsalign2d.txt
Example Code
mcsfragdatabase.java
Example Code
MCSS
mcssoeexpropts.java
Example Code
MDL query
mdlquery2img.java
Example Code
mdlquery2img.txt
Example Code
mdlquerysearchmapping.java
Example Code
mdlquerysearchsinglematch.java
Example Code
mdlreaction2img.java
Example Code
mdlreaction2img.txt
Example Code
memsimsearch.java
Example Code
minpath.java
Example Code
ModifyOptions
OEMedChem::OEMatchedPairAnalyzer
OEMedChem::OEMatchedPairAnalyzerOptions
mol2img.java
Example Code
mol2img.txt
Example Code
mol2nam_example.java
Example Code
molbasetype.java
Example Code
molcount.java
Example Code
molecule dimension
molecule energy
molecule title, [1]
MoleculeToCores
OEMedChem::OEMCSFragDatabase
molextract.java
Example Code
molfind.java
Example Code
molgrep.java
Example Code
molpropsddata.java
Example Code
molproptable.java
Example Code
mols2img.java
Example Code
mols2img.txt
Example Code
mols2pdf.java
Example Code
mols2pdf.txt
Example Code
molstats.java
Example Code
Msg
OESystem::OEErrorHandler
OESystem::OEErrorHandlerImplBase
multicoremolfind.java
Example Code
multipage.java
Example Code
multipagereport.java
Example Code

N

nam2mol_example.java
Example Code
NegateBits
OESystem::OEBitVector
neutralionization.java
Example Code
NewAtom
OEChem::OEMolBase
NewBody
OEDepict::OEReport
NewBond
OEChem::OEMolBase
NewCell
OEDepict::OEReport
NewConf
OEChem::OEMCMolBase
newconffromcoords.java
Example Code
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
normalization.java
Example Code
nthmolecule.java
Example Code
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
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
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
OEGrapheme::OE2DActiveSiteLegendDisplayOptions
OEGrapheme::OEColorForceFieldLegendDisplayOptions
NumRowsPerPage
OEDepict::OEReport
OEDepict::OEReportOptions
NumSmarts
OEDocking::OEFeature
NumSpheres
OEDocking::OEFeature
NumStops
OESystem::OEColorGradientBase
NumValues
OEMolPotential::OEInteraction
NumVar
OEOpt::OEFunc0
OEShape::OEHermiteShapeFunc
nxnshape.java
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::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::OECrystalSymmetryParams
Constructors
GetA
GetAlpha
GetB
GetBeta
GetC
GetGamma
GetSpaceGroup
SetA
SetAlpha
SetB
SetBeta
SetC
SetGamma
SetSpaceGroup
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::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
GetEndFragment
GetFragment
GetInteractionType
GetWeight
IsDataType
IsInter
IsIntra
IsValid
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
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::OEIsChelatorInteractionHint
Constructors
CreateCopy
operator()
OEBio::OEIsClashInteractionHint
Constructors
CreateCopy
operator()
OEBio::OEIsContactInteractionHint
Constructors
CreateCopy
operator()
OEBio::OEIsHalogenBondInteractionHint
Constructors
CreateCopy
operator()
OEBio::OEIsHBondInteractionHint
Constructors
CreateCopy
operator()
OEBio::OEIsInterInteractionHint
Constructors
CreateCopy
operator()
OEBio::OEIsIntermolecularHBondInteractionHint
Constructors
CreateCopy
operator()
OEBio::OEIsIntraInteractionHint
Constructors
CreateCopy
operator()
OEBio::OEIsIntramolecularHBondInteractionHint
Constructors
CreateCopy
operator()
OEBio::OEIsSaltBridgeInteractionHint
Constructors
CreateCopy
operator()
OEBio::OEIsStackingInteractionHint
Constructors
CreateCopy
operator()
OEBio::OEIsStandardProteinResidue
OEBio::OEIsTypicalPrimaryLocationCode
OEBio::OEIsValidActiveSite
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
GetMaxChargeAidedHBondDistance
GetMaxContactFraction
GetMaxDonorAngle
GetMaxHBondDistance
GetMaxHalogenAngle
GetMaxHalogenBondDistance
GetMaxMetalBondDistance
GetMaxPiStackAngle
GetMaxPiStackDistance
GetMaxSaltBridgeDistance
GetMaxTStackAngle
GetMaxTStackDistance
GetMaxUnpairedAngle
GetMaxUnpairedDistance
GetMinContactFraction
GetMinHBondContactFraction
SetMaxAcceptorAngle
SetMaxChargeAidedHBondDistance
SetMaxContactFraction
SetMaxDonorAngle
SetMaxHBondDistance
SetMaxHalogenAngle
SetMaxHalogenBondDistance
SetMaxMetalBondDistance
SetMaxPiStackAngle
SetMaxPiStackDistance
SetMaxSaltBridgeDistance
SetMaxTStackAngle
SetMaxTStackDistance
SetMaxUnpairedAngle
SetMaxUnpairedDistance
SetMinContactFraction
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::UnpairedProtein
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::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::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::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::OEComposeDMCSFromCliques
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
GetReconnectedMetals
GetStereo
SetChiral
SetFixedHLayer
SetHydrogens
SetReconnectedMetals
SetStereo
operator=
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
GetConfList
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
GetConfList
MCMol
SCMol
operator OEMCMolBase &
operator=
OEChem::OEMolBase
Clear
ClearBase
ClearCoords
Compress
Count
CreateCopy
DeleteAtom
DeleteBond
DeleteGroup
GetAtom
GetAtomList
GetAtoms
GetBond
GetBondList
GetBonds
GetCoords
GetDimension
GetEnergy
GetGroup
GetGroupList
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::OEMultipleBondCount
OEChem::OEMutableCoords
Constructors
GetPtr
operator T *
OEChem::OENbrs
Constructors
GetBgn
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::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::ReconnectedMetals
OEChem::OEOFlavor::INCHI::Stereo
OEChem::OEOFlavor::INCHIKEY
OEChem::OEOFlavor::INCHIKEY::Chiral
OEChem::OEOFlavor::INCHIKEY::Default
OEChem::OEOFlavor::INCHIKEY::FixedHLayer
OEChem::OEOFlavor::INCHIKEY::Hydrogens
OEChem::OEOFlavor::INCHIKEY::ReconnectedMetals
OEChem::OEOFlavor::INCHIKEY::Stereo
OEChem::OEOFlavor::ISM
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::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::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::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
OEChem::OEProperty::Endo
OEChem::OEProperty::Exo
OEChem::OEProperty::Hybridization
OEChem::OEProperty::HydrogenMode
OEChem::OEProperty::Isotope
OEChem::OEProperty::Kekule
OEChem::OEProperty::MapIdx
OEChem::OEProperty::MatchOrder
OEChem::OEProperty::OEBase
OEChem::OEProperty::PartialCharge
OEChem::OEProperty::PartialChargeModel
OEChem::OEProperty::Perceived
OEChem::OEProperty::PhCorrected
OEChem::OEProperty::Radius
OEChem::OEProperty::Residue
OEChem::OEProperty::Ring
OEChem::OEProperty::RingAtomsAndBonds
OEChem::OEProperty::Rotor
OEChem::OEProperty::Rxn
OEChem::OEProperty::RxnRole
OEChem::OEProperty::Single
OEChem::OEProperty::StereoDefined
OEChem::OEProperty::SymClass
OEChem::OEProperty::Triple
OEChem::OEProperty::Undefined
OEChem::OEProperty::Valence
OEChem::OEProperty::Visit
OEChem::OEProperty::X
OEChem::OEProperty::Y
OEChem::OEProperty::Z
OEChem::OEQAtomBase
GetParentAtom
GetQAtoms
GetQBonds
IsDataType
OEChem::OEQBase
GetExpr
SetExpr
OEChem::OEQBondBase
GetParentBond
IsDataType
OEChem::OEQMol
BuildExpressions
Constructors
GetQAtoms
GetQBonds
QMol
SCMol
operator OEMolBase &
operator OEQMolBase &
operator=
OEChem::OEQMolBase
BuildExpressions
Constructors
CreateCopy
GetQAtoms
GetQBonds
IsDataType
operator=
OEChem::OEQMolType
OEChem::OEQMolType::MaxType
OEChem::OEQMolType::OEDefault
OEChem::OEQMolType::Undefined
OEChem::OEQuaternion
Constructors
CreateCopy
Extract
GetInverse
GetQuaternion
operator=
OEChem::OERadiiType
OEChem::OERadiiType::BondiHVdw
OEChem::OERadiiType::BondiVdw
OEChem::OERadiiType::Covalent
OEChem::OERadiiType::Default
OEChem::OERadiiType::Delphi
OEChem::OERadiiType::Delphi_Robust
OEChem::OERadiiType::HonigIonicCavity
OEChem::OERadiiType::HonigIonicCavity_Robust
OEChem::OERadiiType::Max
OEChem::OERadiiType::None
OEChem::OERadiiType::PaulingVdw
OEChem::OERadiiType::PaulingVdw_Robust
OEChem::OERadiiType::Zap7
OEChem::OERadiiType::Zap7_CarbonylOxygen
OEChem::OERadiiType::Zap7_DoublyBondedOxygen
OEChem::OERadiiType::Zap9
OEChem::OERadiiType::Zap9_JCAMD2010
OEChem::OERadiiType::Zap9_JMC2008
OEChem::OERandomizeTorsions
OEChem::OEReadCDXFile
OEChem::OEReadCSVFile
OEChem::OEReadCSVHeader
OEChem::OEReadFASTAFile
OEChem::OEReadMacroModelFile
OEChem::OEReadMDLFile
OEChem::OEReadMDLQueryFile
OEChem::OEReadMDLReactionQueryFile
OEChem::OEReadMol2File
OEChem::OEReadMolecule
OEChem::OEReadMolFromByteArray
OEChem::OEReadMOPACFile
OEChem::OEReadOEBFile
OEChem::OEReadPDBFile
OEChem::OEReadRxnFile
OEChem::OEReadSketchFile
OEChem::OEReadXYZFile
OEChem::OEResidue
Constructors
GetAlternateLocation
GetBFactor
GetChainID
GetFragmentNumber
GetInsertCode
GetModelNumber
GetName
GetOccupancy
GetResidueNumber
GetSecondaryStructure
GetSerialNumber
IsHetAtom
SetAlternateLocation
SetBFactor
SetChainID
SetFragmentNumber
SetHetAtom
SetInsertCode
SetModelNumber
SetName
SetOccupancy
SetResidueNumber
SetSecondaryStructure
SetSerialNumber
operator bool
operator=
OEChem::OEResidueHydrogens
OEChem::OEResidueIndex
OEChem::OEResidueIndex::_1MA
OEChem::OEResidueIndex::_2MG
OEChem::OEResidueIndex::_5MC
OEChem::OEResidueIndex::_5MU
OEChem::OEResidueIndex::_7MG
OEChem::OEResidueIndex::A
OEChem::OEResidueIndex::ABA
OEChem::OEResidueIndex::ACE
OEChem::OEResidueIndex::ADP
OEChem::OEResidueIndex::AF3
OEChem::OEResidueIndex::ALA
OEChem::OEResidueIndex::ALF
OEChem::OEResidueIndex::ARG
OEChem::OEResidueIndex::ASH
OEChem::OEResidueIndex::ASN
OEChem::OEResidueIndex::ASP
OEChem::OEResidueIndex::ASX
OEChem::OEResidueIndex::ATP
OEChem::OEResidueIndex::BME
OEChem::OEResidueIndex::BR
OEChem::OEResidueIndex::C
OEChem::OEResidueIndex::CGU
OEChem::OEResidueIndex::CIM
OEChem::OEResidueIndex::CIP
OEChem::OEResidueIndex::CL
OEChem::OEResidueIndex::CME
OEChem::OEResidueIndex::CSD
OEChem::OEResidueIndex::CYH
OEChem::OEResidueIndex::CYM
OEChem::OEResidueIndex::CYS
OEChem::OEResidueIndex::CYX
OEChem::OEResidueIndex::DA
OEChem::OEResidueIndex::DC
OEChem::OEResidueIndex::DG
OEChem::OEResidueIndex::DI
OEChem::OEResidueIndex::DMS
OEChem::OEResidueIndex::DU
OEChem::OEResidueIndex::EDO
OEChem::OEResidueIndex::EOH
OEChem::OEResidueIndex::FAD
OEChem::OEResidueIndex::FOR
OEChem::OEResidueIndex::G
OEChem::OEResidueIndex::GLH
OEChem::OEResidueIndex::GLN
OEChem::OEResidueIndex::GLU
OEChem::OEResidueIndex::GLX
OEChem::OEResidueIndex::GLY
OEChem::OEResidueIndex::GOL
OEChem::OEResidueIndex::H2U
OEChem::OEResidueIndex::HEM
OEChem::OEResidueIndex::HID
OEChem::OEResidueIndex::HIE
OEChem::OEResidueIndex::HIP
OEChem::OEResidueIndex::HIS
OEChem::OEResidueIndex::HOH
OEChem::OEResidueIndex::HSE
OEChem::OEResidueIndex::HYL
OEChem::OEResidueIndex::HYP
OEChem::OEResidueIndex::I
OEChem::OEResidueIndex::ILE
OEChem::OEResidueIndex::IOD
OEChem::OEResidueIndex::LEU
OEChem::OEResidueIndex::LIG
OEChem::OEResidueIndex::LYN
OEChem::OEResidueIndex::LYS
OEChem::OEResidueIndex::LYZ
OEChem::OEResidueIndex::M2G
OEChem::OEResidueIndex::MEN
OEChem::OEResidueIndex::MET
OEChem::OEResidueIndex::MLE
OEChem::OEResidueIndex::MLY
OEChem::OEResidueIndex::MOH
OEChem::OEResidueIndex::MOL
OEChem::OEResidueIndex::MSE
OEChem::OEResidueIndex::NAD
OEChem::OEResidueIndex::NAG
OEChem::OEResidueIndex::NHE
OEChem::OEResidueIndex::NME
OEChem::OEResidueIndex::OMC
OEChem::OEResidueIndex::OMG
OEChem::OEResidueIndex::ORN
OEChem::OEResidueIndex::PCA
OEChem::OEResidueIndex::PEO
OEChem::OEResidueIndex::PER
OEChem::OEResidueIndex::PHE
OEChem::OEResidueIndex::PO2
OEChem::OEResidueIndex::PO4
OEChem::OEResidueIndex::PRO
OEChem::OEResidueIndex::PSU
OEChem::OEResidueIndex::PTR
OEChem::OEResidueIndex::SAR
OEChem::OEResidueIndex::SEP
OEChem::OEResidueIndex::SER
OEChem::OEResidueIndex::SO2
OEChem::OEResidueIndex::SO4
OEChem::OEResidueIndex::SX
OEChem::OEResidueIndex::T
OEChem::OEResidueIndex::TAU
OEChem::OEResidueIndex::THR
OEChem::OEResidueIndex::TPO
OEChem::OEResidueIndex::TRP
OEChem::OEResidueIndex::TYM
OEChem::OEResidueIndex::TYR
OEChem::OEResidueIndex::U
OEChem::OEResidueIndex::UNK
OEChem::OEResidueIndex::UNL
OEChem::OEResidueIndex::VAL
OEChem::OEResidueIndex::YG
OEChem::OERMSD
OEChem::OERotate
OEChem::OERotMatrix
Constructors
CreateCopy
Extract
GetInverse
GetRotMatrix
operator=
OEChem::OERxnRole
OEChem::OERxnRole::Agent
OEChem::OERxnRole::Catalyst
OEChem::OERxnRole::None
OEChem::OERxnRole::Product
OEChem::OERxnRole::Reactant
OEChem::OESameChain
OEChem::OESameResidue
OEChem::OEScrambleMolecule
OEChem::OESDDataPair
Constructors
GetTag
GetValue
SetTag
SetValue
OEChem::OESet3DHydrogenGeom
OEChem::OESetAngle
OEChem::OESetAnisou
OEChem::OESetAtomComment
OEChem::OESetCIPStereo
OEChem::OESetComment
OEChem::OESetDefaultFlavors
OEChem::OESetDefaultIFlavors
OEChem::OESetDefaultOFlavors
OEChem::OESetDimensionFromCoords
OEChem::OESetDistance
OEChem::OESetMCSExhaustiveSearchTruncationLimit
OEChem::OESetMDLDimensionFromCoords
OEChem::OESetOEGraphMol
OEChem::OESetOEMol
OEChem::OESetOEQMol
OEChem::OESetPackedCoords
OEChem::OESetPDBData
OEChem::OESetSDData
OEChem::OESetTorsion
OEChem::OEShortestPath
OEChem::OESimilarByRMSD
Constructors
CreateCopy
operator()
operator=
OEChem::OESingleBondCount
OEChem::OESLNFlag
OEChem::OESLNFlag::Canonical
OEChem::OESLNFlag::Coords2D