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V

ValencyCalculator - Class in uk.ac.ebi.reactionblast.tools
 
valueInAscendingOrder(Map<Object, Double>) - Static method in class uk.ac.ebi.reactionblast.tools.utility.SortMap
 
valueInDescendingOrder(Map<Object, Double>) - Static method in class uk.ac.ebi.reactionblast.tools.utility.SortMap
 
valueOf(String) - Static method in enum org.openscience.smsd.algorithm.vflib.SortOrder
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.openscience.smsd.interfaces.Algorithm
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.openscience.smsd.mcss.JobType
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum uk.ac.ebi.centres.descriptor.General
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum uk.ac.ebi.centres.descriptor.Planar
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum uk.ac.ebi.centres.descriptor.Tetrahedral
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum uk.ac.ebi.centres.descriptor.Trigonal
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum uk.ac.ebi.centres.Descriptor.Type
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum uk.ac.ebi.centres.PriorityRule.Type
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum uk.ac.ebi.reactionblast.graphics.direct.Axis
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum uk.ac.ebi.reactionblast.graphics.direct.LabelManager.AnnotationPosition
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum uk.ac.ebi.reactionblast.graphics.direct.Params.ArrowType
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum uk.ac.ebi.reactionblast.graphics.direct.Params.BondStrokeCap
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum uk.ac.ebi.reactionblast.graphics.direct.Params.BondStrokeJoin
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum uk.ac.ebi.reactionblast.graphics.direct.Params.MoleculeAlignMethod
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum uk.ac.ebi.reactionblast.graphics.direct.Params.XAlign
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum uk.ac.ebi.reactionblast.graphics.direct.Params.YAlign
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum uk.ac.ebi.reactionblast.interfaces.ITransformation.TargetType
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum uk.ac.ebi.reactionblast.mapping.interfaces.IMappingAlgorithm
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum uk.ac.ebi.reactionblast.mechanism.interfaces.ECBLAST_BOND_CHANGE_FLAGS
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum uk.ac.ebi.reactionblast.mechanism.interfaces.ECBLAST_FLAGS
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum uk.ac.ebi.reactionblast.mechanism.interfaces.EnumBondTypeChange
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum uk.ac.ebi.reactionblast.mechanism.interfaces.EnumSubstrateProduct
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum uk.ac.ebi.reactionblast.stereo.inchi.InchiStereoAndConformation
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum uk.ac.ebi.reactionblast.stereo.IStereoAndConformation
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum uk.ac.ebi.reactionblast.stereo.wedge.WedgeStereoAnalysisResult
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum uk.ac.ebi.reactionblast.tools.rxnfile.MDLV2000Writer.SPIN_MULTIPLICITY
Returns the enum constant of this type with the specified name.
values() - Static method in enum org.openscience.smsd.algorithm.vflib.SortOrder
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.openscience.smsd.interfaces.Algorithm
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.openscience.smsd.mcss.JobType
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum uk.ac.ebi.centres.descriptor.General
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum uk.ac.ebi.centres.descriptor.Planar
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum uk.ac.ebi.centres.descriptor.Tetrahedral
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum uk.ac.ebi.centres.descriptor.Trigonal
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum uk.ac.ebi.centres.Descriptor.Type
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum uk.ac.ebi.centres.PriorityRule.Type
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Method in class uk.ac.ebi.reactionblast.containers.ReactionDBContainer
 
values() - Static method in enum uk.ac.ebi.reactionblast.graphics.direct.Axis
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum uk.ac.ebi.reactionblast.graphics.direct.LabelManager.AnnotationPosition
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum uk.ac.ebi.reactionblast.graphics.direct.Params.ArrowType
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum uk.ac.ebi.reactionblast.graphics.direct.Params.BondStrokeCap
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum uk.ac.ebi.reactionblast.graphics.direct.Params.BondStrokeJoin
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum uk.ac.ebi.reactionblast.graphics.direct.Params.MoleculeAlignMethod
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum uk.ac.ebi.reactionblast.graphics.direct.Params.XAlign
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum uk.ac.ebi.reactionblast.graphics.direct.Params.YAlign
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum uk.ac.ebi.reactionblast.interfaces.ITransformation.TargetType
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum uk.ac.ebi.reactionblast.mapping.interfaces.IMappingAlgorithm
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum uk.ac.ebi.reactionblast.mechanism.interfaces.ECBLAST_BOND_CHANGE_FLAGS
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum uk.ac.ebi.reactionblast.mechanism.interfaces.ECBLAST_FLAGS
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum uk.ac.ebi.reactionblast.mechanism.interfaces.EnumBondTypeChange
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum uk.ac.ebi.reactionblast.mechanism.interfaces.EnumSubstrateProduct
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum uk.ac.ebi.reactionblast.stereo.inchi.InchiStereoAndConformation
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum uk.ac.ebi.reactionblast.stereo.IStereoAndConformation
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum uk.ac.ebi.reactionblast.stereo.wedge.WedgeStereoAnalysisResult
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum uk.ac.ebi.reactionblast.tools.rxnfile.MDLV2000Writer.SPIN_MULTIPLICITY
Returns an array containing the constants of this enum type, in the order they are declared.
vertices - Variable in class uk.ac.ebi.reactionblast.mapping.blocks.MappingGraph
 
VF2 - Class in org.openscience.smsd.algorithm.vflib.substructure
This class finds mapping states between query and target molecules.
VF2(IAtomContainer, IAtomContainer, boolean, boolean, boolean) - Constructor for class org.openscience.smsd.algorithm.vflib.substructure.VF2
Constructor for an extended VF Algorithm for the MCS search
VF2(IQueryAtomContainer, IAtomContainer) - Constructor for class org.openscience.smsd.algorithm.vflib.substructure.VF2
Constructor for an extended VF Algorithm for the MCS search
VF2MCS - Class in org.openscience.smsd.algorithm.vflib
This class should be used to find MCS between source graph and target graph.
VF2MCS(IAtomContainer, IAtomContainer, boolean, boolean, boolean) - Constructor for class org.openscience.smsd.algorithm.vflib.VF2MCS
Constructor for an extended VF Algorithm for the MCS search
VF2MCS(IQueryAtomContainer, IAtomContainer) - Constructor for class org.openscience.smsd.algorithm.vflib.VF2MCS
Constructor for an extended VF Algorithm for the MCS search
VF2MCS(IQueryAtomContainer, IQueryAtomContainer) - Constructor for class org.openscience.smsd.algorithm.vflib.VF2MCS
Constructor for an extended VF Algorithm for the MCS search
VF2Sub - Class in org.openscience.smsd.algorithm.vflib
This class should be used to find MCS between source graph and target graph.
VF2Sub(IAtomContainer, IAtomContainer, boolean, boolean, boolean) - Constructor for class org.openscience.smsd.algorithm.vflib.VF2Sub
Constructor for an extended VF Algorithm for the MCS search
VF2Sub(IQueryAtomContainer, IAtomContainer) - Constructor for class org.openscience.smsd.algorithm.vflib.VF2Sub
Constructor for an extended VF Algorithm for the MCS search
vfLibSolutions - Variable in class org.openscience.smsd.algorithm.vflib.BaseMCS
 
VFMapper - Class in org.openscience.smsd.algorithm.vflib.map
This class finds MCS between query and target molecules using VF2 algorithm.
VFMapper(IQuery) - Constructor for class org.openscience.smsd.algorithm.vflib.map.VFMapper
 
VFMapper(IAtomContainer, boolean, boolean, boolean) - Constructor for class org.openscience.smsd.algorithm.vflib.map.VFMapper
 
VFMCSMapper - Class in org.openscience.smsd.algorithm.vflib.map
This class finds MCS between query and target molecules using VF2 algorithm.
VFMCSMapper(IQuery) - Constructor for class org.openscience.smsd.algorithm.vflib.map.VFMCSMapper
 
VFMCSMapper(IAtomContainer, boolean, boolean, boolean) - Constructor for class org.openscience.smsd.algorithm.vflib.map.VFMCSMapper
 
VFMCSState - Class in org.openscience.smsd.algorithm.vflib.map
This class finds mapping states between query and target molecules.
VFMCSState(IQuery, IAtomContainer) - Constructor for class org.openscience.smsd.algorithm.vflib.map.VFMCSState
initialize the VFState with query and target
VFQueryBuilder - Class in org.openscience.smsd.algorithm.vflib.builder
Class for parsing and generating query graph.
VFQueryBuilder() - Constructor for class org.openscience.smsd.algorithm.vflib.builder.VFQueryBuilder
Constructor for VF Query Builder
VFState - Class in org.openscience.smsd.algorithm.vflib.map
This class finds mapping states between query and target molecules.
VFState(IQuery, IAtomContainer) - Constructor for class org.openscience.smsd.algorithm.vflib.map.VFState
initialize the VFState with query and target
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