Uses of Class
com.actelion.research.chem.descriptor.flexophore.PPNode

Packages that use PPNode

Package	Description
com.actelion.research.chem.descriptor.flexophore
com.actelion.research.chem.descriptor.flexophore.completegraphmatcher
com.actelion.research.chem.descriptor.flexophore.entity

Uses of PPNode in com.actelion.research.chem.descriptor.flexophore

Subclasses of PPNode in com.actelion.research.chem.descriptor.flexophore

Modifier and Type	Class	Description
class	PPNodeViz	Pharmacophore node with information about corresponding atoms in the molecule used for construction.

Methods in com.actelion.research.chem.descriptor.flexophore that return PPNode

Modifier and Type	Method	Description
PPNode	PPNode.getCopy()	node deep copy.
static PPNode	PPNode.getDummy()
static PPNode	PPNode.getHeteroOnlyNode(PPNode node)
PPNode	IMolDistHist.getNode(int i)
PPNode	MolDistHist.getNode(int index)	!Slow method, it has to iterate through a loop to find the node in the array!
static PPNode	PPNode.read(java.lang.String strNode)

Methods in com.actelion.research.chem.descriptor.flexophore that return types with arguments of type PPNode

Modifier and Type	Method	Description
static java.util.List<PPNode>	MolDistHist.readNodes(java.lang.String strMolDistHist)	reads a MolDistHist from the toString() method.

Methods in com.actelion.research.chem.descriptor.flexophore with parameters of type PPNode

Modifier and Type	Method	Description
void	PPNode.addAtoms(PPNode node)	Only atoms are added that are not yet in the list, check PPAtom.equals for comparison.
void	MolDistHist.addNode(PPNode node)
int	PPNode.compareTo(PPNode o)
void	PPNode.copy(PPNode node)	Copy of node into this.
boolean	PPNode.equalAtoms(PPNode node)	realize() may be called first.
static PPNode	PPNode.getHeteroOnlyNode(PPNode node)

Constructors in com.actelion.research.chem.descriptor.flexophore with parameters of type PPNode

Constructor	Description
PPNode(PPNode node)
PPNodeViz(PPNode node)

Uses of PPNode in com.actelion.research.chem.descriptor.flexophore.completegraphmatcher

Methods in com.actelion.research.chem.descriptor.flexophore.completegraphmatcher with parameters of type PPNode

Modifier and Type	Method	Description
double	PPNodeSimilarity.getSimilarityExtraCarbonConsideration(PPNode query, PPNode base)
double	PPNodeSimilarity.getSimilarityHardMatchAverage(PPNode query, PPNode base)
double	PPNodeSimilarity.getSimilarityHardMatchMultiplicative(PPNode query, PPNode base)
double	PPNodeSimilarity.getSimilarityHardMatchOptimistic(PPNode query, PPNode base)
java.util.List<java.lang.Double>	PPNodeSimilarity.getSimilarityList(PPNode query, PPNode base)
double	PPNodeSimilarity.getSimilaritySimple(PPNode query, PPNode base)

Uses of PPNode in com.actelion.research.chem.descriptor.flexophore.entity

Subclasses of PPNode in com.actelion.research.chem.descriptor.flexophore.entity

Modifier and Type	Class	Description
class	PPNodeRGroup	PPNodeStructure

Constructors in com.actelion.research.chem.descriptor.flexophore.entity with parameters of type PPNode

Constructor	Description
PPNodeRGroup(PPNode node, java.lang.String idcode)