Package | Description |
---|---|
org.biopax.paxtools.io.sif.level2 | |
org.biopax.paxtools.model.level2 |
This package contains the interfaces that maps to the BioPAX level 2 specification.
|
Modifier and Type | Method and Description |
---|---|
void |
ParticipatesRule.inferInteractionsFromPE(InteractionSet interactionSet,
physicalEntity pe,
Model model)
Infer using given physicalEntity as source.
|
void |
InteractionRuleL2.inferInteractionsFromPE(InteractionSet interactionSet,
physicalEntity entity,
Model model)
This method populates the interactionSet with simple interactions that can
be derived from the model based on this rule.
|
void |
ControlsTogetherRule.inferInteractionsFromPE(InteractionSet interactionSet,
physicalEntity A,
Model model)
Infers interactions using A as source.
|
void |
ControlRule.inferInteractionsFromPE(InteractionSet interactionSet,
physicalEntity A,
Model model)
When options map is null, then all rules are generated.
|
void |
ConsecutiveCatalysisRule.inferInteractionsFromPE(InteractionSet interactionSet,
physicalEntity pe,
Model model)
Infers using the given physicalEntity as source.
|
void |
ComponentRule.inferInteractionsFromPE(InteractionSet interactionSet,
physicalEntity A,
Model model)
Infer starting from the given physicalEntity.
|
void |
AffectsRule.inferInteractionsFromPE(InteractionSet interactionSet,
physicalEntity pe,
Model model)
Infers interactions using the given physicalEntity as seed.
|
Modifier and Type | Interface and Description |
---|---|
interface |
complex
A physical entity whose structure is comprised of other physical entities
bound to each other non-covalently, at least one of which is a macromolecule
(e.g.
|
interface |
dna |
interface |
protein |
interface |
rna |
interface |
sequenceEntity
User: root Date: Aug 7, 2006 Time: 4:51:19 PM_DOT
|
interface |
smallMolecule |
Modifier and Type | Method and Description |
---|---|
physicalEntity |
physicalEntityParticipant.getPHYSICAL_ENTITY() |
Modifier and Type | Method and Description |
---|---|
void |
physicalEntityParticipant.setPHYSICAL_ENTITY(physicalEntity PHYSICAL_ENTITY) |
Copyright © 2015 BioPAX. All rights reserved.