Uses of Class
org.biopax.paxtools.io.sif.SimpleInteraction

Packages that use SimpleInteraction

Package	Description
org.biopax.paxtools.io.sif	This package contains methods and algorithms for reducing BioPAX to Simple Interaction Format.

Uses of SimpleInteraction in org.biopax.paxtools.io.sif

Methods in org.biopax.paxtools.io.sif that return types with arguments of type SimpleInteraction

Modifier and Type	Method and Description
Set<SimpleInteraction>	SimpleInteractionConverter.inferInteractions(Model model) Deprecated. Infers simple interactions from the interactions found in the model for every interaction rule given; and returns this inferred simple interactions.

Methods in org.biopax.paxtools.io.sif with parameters of type SimpleInteraction

Modifier and Type	Method and Description
boolean	InteractionSet.add(SimpleInteraction simpleInteraction) If the interaction already exists, mediators are updated with merging.

Method parameters in org.biopax.paxtools.io.sif with type arguments of type SimpleInteraction

Modifier and Type	Method and Description
protected void	SimpleInteractionConverter.removeInteractionsWithBlackListMolecules(Set<SimpleInteraction> interactions, Set<String> blackList) Deprecated. Filters out interactions whose source or target are in black list.