Uses of Class
fr.curie.BiNoM.pathways.utils.BioPAXGraphQuery

Packages that use BioPAXGraphQuery

fr.curie.BiNoM.cytoscape.biopax.query	Cytoscape interface to BioPAX query engine
fr.curie.BiNoM.pathways.utils	Utility classes

Uses of BioPAXGraphQuery in fr.curie.BiNoM.cytoscape.biopax.query

Methods in fr.curie.BiNoM.cytoscape.biopax.query that return BioPAXGraphQuery

BioPAXGraphQuery

BioPAXSelectEntitiesTask.getBioPAXGraphQuery()

Constructors in fr.curie.BiNoM.cytoscape.biopax.query with parameters of type BioPAXGraphQuery

BioPAXSelectEntitiesTask(BioPAXGraphQuery q, int itype, int otype)

BioPAXStandardQueryTask(BioPAXStandardQueryTask.StandardQueryOptions opt, BioPAXGraphQuery q, java.util.Vector sel, boolean current)

Uses of BioPAXGraphQuery in fr.curie.BiNoM.pathways.utils

Fields in fr.curie.BiNoM.pathways.utils declared as BioPAXGraphQuery

BioPAXGraphQuery

BioPAXGraphQueryEngine.query The query to be made

Methods in fr.curie.BiNoM.pathways.utils that return BioPAXGraphQuery

static BioPAXGraphQuery	BioPAXGraphQuery.convertListOfNamesToQuery(java.util.Vector names, java.util.Vector IDs) Utility converting vector of names and ids to a BioPAXGraphQuery object
static BioPAXGraphQuery	BioPAXGraphQuery.parseXGMML(java.lang.String fn) Loads BioPAXGraphQuery from a XGMML file

Methods in fr.curie.BiNoM.pathways.utils with parameters of type BioPAXGraphQuery

void	AccessionNumberTable.addSynonyms(BioPAXGraphQuery query) To every node of query adds BIOPAX_NODE_SYNONYM attribute accordingly to found ids connected to the Node.Id
void	BioPAXGraphQueryEngine.doQuery(BioPAXGraphQuery q, int queryType) Performs a query of queryType