Package | Description |
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org.biopax.paxtools.query.algorithm |
This package contains the SIF rules for BioPAX Level 3.
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org.biopax.paxtools.query.model |
This package contains the SIF rules for BioPAX Level 3.
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org.biopax.paxtools.query.wrapperL3 |
This package contains TODO annotate!
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Modifier and Type | Method and Description |
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boolean |
CycleBreaker.isSafe(Node node,
Edge edge)
Checks whether an edge is on an unwanted cycle.
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Modifier and Type | Class and Description |
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class |
AbstractEdge
The base class for an edge in the traversed graph.
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Modifier and Type | Field and Description |
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protected Set<Edge> |
AbstractNode.downstream
Set of downstream edges.
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protected Set<Edge> |
AbstractNode.upstream
Set of upstream edges.
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Modifier and Type | Method and Description |
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Collection<Edge> |
Node.getDownstream() |
Collection<Edge> |
AbstractNode.getDownstream()
Gets the downstream edges.
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Collection<Edge> |
AbstractNode.getDownstreamNoInit()
This class gets the downstream links but does not initialize.
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Collection<Edge> |
Node.getUpstream() |
Collection<Edge> |
AbstractNode.getUpstream()
Gets the upstream edges.
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Collection<Edge> |
AbstractNode.getUpstreamNoInit()
This class gets the upstream links but does not initialize.
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Modifier and Type | Class and Description |
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class |
EdgeL3
Wrapper for links between L3 objects.
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Copyright © 2015 BioPAX. All rights reserved.