Uses of Class
de.unirostock.sems.bives.ds.rn.ReactionNetwork

Packages that use ReactionNetwork

Package	Description
de.unirostock.sems.bives.algorithm
de.unirostock.sems.bives.ds.graph
de.unirostock.sems.bives.ds.rn

Uses of ReactionNetwork in de.unirostock.sems.bives.algorithm

Fields in de.unirostock.sems.bives.algorithm declared as ReactionNetwork

Modifier and Type	Field and Description
protected ReactionNetwork	GraphProducer.rn The reaction network.

Methods in de.unirostock.sems.bives.algorithm that return ReactionNetwork

Modifier and Type	Method and Description
ReactionNetwork	GraphProducer.getCRN() Deprecated. As of 1.3.3 replaced by GraphProducer.getReactionNetwork()
ReactionNetwork	GraphProducer.getReactionNetwork() Gets the reaction network graph.

Uses of ReactionNetwork in de.unirostock.sems.bives.ds.graph

Methods in de.unirostock.sems.bives.ds.graph with parameters of type ReactionNetwork

Modifier and Type	Method and Description
String	GraphTranslatorSbgnJson.translate(ReactionNetwork rn)
String	GraphTranslatorGraphML.translate(ReactionNetwork rn)
String	GraphTranslatorDot.translate(ReactionNetwork rn)
abstract Object	GraphTranslator.translate(ReactionNetwork rn) Translate a reaction network.
String	GraphTranslatorJson.translate(ReactionNetwork rn)

Uses of ReactionNetwork in de.unirostock.sems.bives.ds.rn

Constructors in de.unirostock.sems.bives.ds.rn with parameters of type ReactionNetwork

Constructor and Description
ReactionNetworkCompartment(ReactionNetwork rn, String labelA, String labelB, de.unirostock.sems.xmlutils.ds.DocumentNode docA, de.unirostock.sems.xmlutils.ds.DocumentNode docB) Instantiates a new compartment.
ReactionNetworkReaction(ReactionNetwork rn, String labelA, String labelB, de.unirostock.sems.xmlutils.ds.DocumentNode docA, de.unirostock.sems.xmlutils.ds.DocumentNode docB, ReactionNetworkCompartment compartmentA, ReactionNetworkCompartment compartmentB, boolean reversible) Instantiates a new ReactionNetwork reaction.
ReactionNetworkSubstance(ReactionNetwork rn, String labelA, String labelB, de.unirostock.sems.xmlutils.ds.DocumentNode docA, de.unirostock.sems.xmlutils.ds.DocumentNode docB, ReactionNetworkCompartment compartmentA, ReactionNetworkCompartment compartmentB) Instantiates a new substance in a reaction network.