Package | Description |
---|---|
edu.ucsd.sbrg.escher.converter |
Provides converters for Escher JSON to community standards (SBGN, SBML) and vice-versa.
|
edu.ucsd.sbrg.escher.model |
Represents model classes for representation of Escher's components.
|
Modifier and Type | Method and Description |
---|---|
Node |
SBGN2Escher.createMidMarker(org.sbgn.bindings.Glyph glyph)
Create an Escher
Node (mid-marker) from process Glyph . |
protected Node |
SBML2Escher.createMidMarker(org.sbml.jsbml.ext.layout.ReactionGlyph reactionGlyph)
Creates a
Node (mid-marker) from a ReactionGlyph . |
Node |
SBGN2Escher.createMultiMarker(org.sbgn.bindings.Arc.Next next)
Create an Escher
Node (multi-marker) from Arc.Next . |
Node |
SBGN2Escher.createNode(org.sbgn.bindings.Glyph glyph)
Create an Escher
Node (metabolite) from EPN Glyph . |
protected Node |
SBML2Escher.createNode(org.sbml.jsbml.ext.layout.SpeciesGlyph speciesGlyph)
Creates a
Node (metabolite) from a SpeciesGlyph . |
Modifier and Type | Method and Description |
---|---|
protected List<Node> |
SBML2Escher.createMultiMarkers(org.sbml.jsbml.ext.layout.SpeciesReferenceGlyph sRG)
Creates a list of
Node s(multi-markers) from a SpeciesReferenceGlyph . |
Modifier and Type | Method and Description |
---|---|
Node |
Node.clone() |
Node |
EscherReaction.findMidmarker(EscherMap map) |
Node |
EscherReaction.getMidmarker() |
Node |
EscherMap.getNode(String id) |
Node |
EscherMap.removeNode(String id)
Removes node from
EscherMap.nodes . |
Modifier and Type | Method and Description |
---|---|
Map<String,Node> |
EscherMap.getNodes() |
Set<Node> |
EscherMap.getNodes(String biggId) |
Set<Node> |
EscherReaction.intersect(Set<Node> nodes) |
Set<Map.Entry<String,Node>> |
EscherMap.nodes() |
Modifier and Type | Method and Description |
---|---|
void |
EscherMap.addNode(Node node) |
void |
EscherReaction.setMidmarker(Node midmarker) |
Modifier and Type | Method and Description |
---|---|
Set<Node> |
EscherReaction.intersect(Set<Node> nodes) |
void |
EscherMap.setNodes(Map<String,Node> nodes) |
Constructor and Description |
---|
Node(Node node) |
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