Package | Description |
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org.biopax.paxtools.controller |
This package contains various methods and algorithms for traversing and manipulating the model.
|
org.biopax.paxtools.io.sif |
This package contains methods and algorithms for reducing BioPAX to Simple Interaction Format.
|
org.biopax.paxtools.io.sif.level3 |
This package contains the SIF rules for BioPAX Level 3.
|
org.biopax.paxtools.model.level3 |
This package contains the interfaces that maps classes defined in the BioPAX Level 3 specification.
|
org.biopax.paxtools.trove | |
org.biopax.paxtools.util |
This package contains various collections and utilities that is used by the other packages and modules of paxtools.
|
Class and Description |
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Filter
Generic interface for defining filter decorators.
|
IllegalBioPAXArgumentException
This exception is thrown typically when BioPAX domain or cardinality restrictions are violated.
|
Class and Description |
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AccessibleSet
This is a decorator set for capturing a set member that is equal to the given parameter.
|
Class and Description |
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AccessibleSet
This is a decorator set for capturing a set member that is equal to the given parameter.
|
Class and Description |
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AutoComplete
Interface for demarcating excise-able boundaries of the object graph.
|
Class and Description |
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BPCollections.CollectionProvider
This interface is responsible for setting the class
and initialize and load factor for all sets and maps
used in all model objects for performance purposes.
|
Class and Description |
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AbstractFilterSet
Base class for implementing various filter sets.
|
BasicFilterFactory
Deprecated.
Hibernate ORM/Search will be removed in v5
|
BPCollections |
BPCollections.CollectionProvider
This interface is responsible for setting the class
and initialize and load factor for all sets and maps
used in all model objects for performance purposes.
|
Filter
Generic interface for defining filter decorators.
|
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