Class | Description |
---|---|
Annotation |
Represents an Annotation object in the cSBOL data model.
|
Collection |
Represents an Collection object in the SBOL data model.
|
Component |
Represents a Component object in the SBOL data model.
|
ComponentDefinition |
Represents a ComponentDefinition object in the SBOL data model.
|
ComponentInstance |
Represents a ComponentInstance object in the SBOL data model.
|
Cut |
Represents the Cut extension of the SBOL Location class.
|
EDAMOntology |
This class provides methods for accessing EMBRACE Data and Methods (EDAM) terms
and querying about their relationships.
|
FunctionalComponent |
Represents a FunctionalComponent object in the SBOL data model.
|
GenericLocation |
Represents a GenericLocation extension object of the SBOL Location class.
|
GenericTopLevel |
Represents a GenericTopLevel object in the SBOL data model.
|
Identified |
Represents an Identified object in the SBOL data model.
|
Interaction |
Represents an Interaction object in the SOBL data model.
|
Location |
Represents a Location object in the SOBL data model.
|
MapsTo |
Represents a MapsTo object in the SBOL data model.
|
Model |
Represents a Model object in the SBOL data model.
|
Module |
Represents a Module object in the SBOL data model.
|
ModuleDefinition |
Represents a ModuleDefinition object in the SBOL data model.
|
Participation |
Represents a Participation object in the SBOL data model.
|
Range |
Represents a Range extension object of the SBOL Location class.
|
SBOLDocument |
Represents the SBOL document where all top-level instances can be created and manipulated.
|
SBOLFactory |
This is a helper class that avoids the need for the user to explicitly create an SBOLDocument instance,
and allows the user to directly create and manipulate top-level instances.
|
SBOLReader |
Provides methods to read input SBOL files.
|
SBOLValidate |
Provides functionality for validating SBOL data models.
|
SBOLWriter |
Provides methods to output SBOL files in XML/RDF format.
|
Sequence |
Represents a Sequence object in the SBOL data model.
|
SequenceAnnotation |
Represents a SequenceAnnotation object in the SBOL data model.
|
SequenceConstraint |
Represents a SequenceConstraint object in the SBOL data model.
|
SequenceOntology |
This class provides methods for accessing Sequence Ontology (SO) terms
and querying about their relationships.
|
SystemsBiologyOntology |
This class provides methods for accessing Systems Biology Ontology (SBO) terms
and querying about their relationships.
|
TopLevel |
Represents a TopLevel object in the SBOL data model.
|
Enum | Description |
---|---|
AccessType |
Represents all access types for a
ComponentInstance object. |
DirectionType |
Represents all direction types for a
FunctionalComponent object. |
OrientationType |
Represents the orientation type for extended classes of the Location class.
|
RefinementType |
Represents the refinement relationship between a MapsTo instance's local and remote components.
|
RestrictionType |
Represents the relationship between a sequence constraint's subject and object components.
|
RoleIntegrationType |
Represents the role integration relationship between roles specified in related objects.
|
Exception | Description |
---|---|
SBOLConversionException |
Signals that an exception related to conversion between SBOL and other file formats has occurred.
|
SBOLValidationException |
Signals that an SBOL validation rule violation has occurred.
|
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