Uses of Class
org.pistoiaalliance.helm.HELMSimilarityLibrary.utils.Graph

Packages that use Graph

Package	Description
org.pistoiaalliance.helm.HELMSimilarityLibrary
org.pistoiaalliance.helm.HELMSimilarityLibrary.utils

Uses of Graph in org.pistoiaalliance.helm.HELMSimilarityLibrary

Methods in org.pistoiaalliance.helm.HELMSimilarityLibrary with parameters of type Graph

Modifier and Type	Method and Description
void	PathGenerator.findPaths(Graph moleculeGraph) Calls depthFirstSearch for every monomer (vertex).

Uses of Graph in org.pistoiaalliance.helm.HELMSimilarityLibrary.utils

Methods in org.pistoiaalliance.helm.HELMSimilarityLibrary.utils that return Graph

Modifier and Type	Method and Description
static Graph	MoleculeGraphUtils.addConnections(Graph moleculeGraph, List<org.helm.notation2.parser.notation.polymer.PolymerNotation> polymerList, List<org.helm.notation2.parser.notation.connection.ConnectionNotation> listOfConnections) Adds the connections between polymers of the molecule.
static Graph	MoleculeGraphUtils.buildChemPart(org.helm.notation2.parser.notation.polymer.PolymerNotation polymer, int polymerNumber) Builds the CHEM part of the molecule.
static Graph	MoleculeGraphUtils.buildMoleculeGraph(List<org.helm.notation2.parser.notation.polymer.PolymerNotation> listPolymerNotations, List<org.helm.notation2.parser.notation.connection.ConnectionNotation> listOfConnections) * Method builds a moleculeGraph from a list of PolymerNotations and a * list of Connections.
static Graph	MoleculeGraphUtils.buildPeptidePart(org.helm.notation2.parser.notation.polymer.PolymerNotation polymer, int polymerNumber) Builds the PEPTIDE part of the molecule.
static Graph	MoleculeGraphUtils.buildRNAPart(org.helm.notation2.parser.notation.polymer.PolymerNotation polymer, int polymerNumber) Builds the RNA part of the molecule.

Methods in org.pistoiaalliance.helm.HELMSimilarityLibrary.utils with parameters of type Graph

Modifier and Type	Method and Description
void	Graph.addAllVertices(Graph graph)
static Graph	MoleculeGraphUtils.addConnections(Graph moleculeGraph, List<org.helm.notation2.parser.notation.polymer.PolymerNotation> polymerList, List<org.helm.notation2.parser.notation.connection.ConnectionNotation> listOfConnections) Adds the connections between polymers of the molecule.
boolean	Graph.equals(Graph otherGraph)