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Biopax - Class in uk.ac.ebi.intenz.biopax.level2

Utility class to dump IntEnz entries as BioPAX model.

Biopax() - Constructor for class uk.ac.ebi.intenz.biopax.level2.Biopax

BiopaxCatalysis - Class in uk.ac.ebi.intenz.biopax.level2

Adapter class to convert IntEnz EnzymeEntrys into BioPAX catalysys objects and viceversa.
Note that one IntEnz EnzymeEntry may catalyze more than one reaction.

BiopaxCatalysis(EnzymeEntry, Model) - Constructor for class uk.ac.ebi.intenz.biopax.level2.BiopaxCatalysis

Constructor from an IntEnz EnzymeEntry.

BiopaxCatalysis(catalysis) - Constructor for class uk.ac.ebi.intenz.biopax.level2.BiopaxCatalysis

Not yet implemented.

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createModel() - Static method in class uk.ac.ebi.intenz.biopax.level2.Biopax

Creates an empty ontology model with the needed namespaces.

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getBiopaxCatalysis() - Method in class uk.ac.ebi.intenz.biopax.level2.BiopaxCatalysis

getIntEnzEnzyme() - Method in class uk.ac.ebi.intenz.biopax.level2.BiopaxCatalysis

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INTENZ_NS - Static variable in class uk.ac.ebi.intenz.biopax.level2.Biopax

INTENZ_PREFIX - Static variable in class uk.ac.ebi.intenz.biopax.level2.Biopax

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uk.ac.ebi.intenz.biopax.level2 - package uk.ac.ebi.intenz.biopax.level2

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write(Collection<EnzymeEntry>, OutputStream) - Static method in class uk.ac.ebi.intenz.biopax.level2.Biopax

Writes a collection of enzyme entries to an output stream.

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