Users of libSBOL may find in this file useful and important symbols corresponding to commonly used ontological terms from the Sequence Ontology, Systems Biology Ontology, BioPAX, etc. More...
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Macros | |
| #define | SBOL_URI "http://sbols.org/v2" |
| Namespace for the SBOL standard. | |
| #define | SBOL_ACCESS_PRIVATE SBOL_URI "#private" |
| Option for Component::access or FunctionalComponent::access property. | |
| #define | SBOL_ACCESS_PUBLIC SBOL_URI "#public" |
| Option for Component::access or FunctionalComponent::access property. | |
| #define | SBOL_DIRECTION_IN SBOL_URI "#in" |
| Option for FunctionalComponent::access property. | |
| #define | SBOL_DIRECTION_OUT SBOL_URI "#out" |
| Option for FunctionalComponent::direction property. | |
| #define | SBOL_DIRECTION_IN_OUT SBOL_URI "#inout" |
| Option for FunctionalComponent::direction property. | |
| #define | SBOL_DIRECTION_NONE SBOL_URI "#none" |
| Option for FunctionalComponent::direction property. | |
| #define | SBOL_RESTRICTION_PRECEDES SBOL_URI "#precedes" |
| Option for SequenceConstraint::restriction property. | |
| #define | SBOL_RESTRICTION_SAME_ORIENTATION_AS "#sameOrientationAs" |
| Option for SequenceConstraint::restriction property. | |
| #define | SBOL_RESTRICTION_OPPOSITE_ORIENTATION_AS "#oppositeOrientationAs" |
| Option for SequenceConstraint::restriction property. | |
| #define | SBOL_ENCODING_IUPAC "http://www.chem.qmul.ac.uk/iubmb/misc/naseq.html" |
| Option for Sequence::encoding property. | |
| #define | SBOL_ENCODING_IUPAC_PROTEIN "http://www.chem.qmul.ac.uk/iupac/AminoAcid/" |
| Option for Sequence::encoding property. | |
| #define | SBOL_ENCODING_SMILES "http://www.opensmiles.org/opensmiles.html" |
| Option for Sequence::encoding property. | |
| #define | SBOL_ORIENTATION_INLINE SBOL_URI "#inline" |
| Option for Location::orientation property. | |
| #define | SBOL_ORIENTATION_REVERSE_COMPLEMENT SBOL_URI "#reverseComplement" |
| Option for Location::orientation property. | |
| #define | SBOL_REFINEMENT_USE_REMOTE SBOL_URI "#useRemote" |
| Option for FunctionalComponent::refinement property. | |
| #define | SBOL_REFINEMENT_USE_LOCAL SBOL_URI "#useLocal" |
| Option for FunctionalComponent::refinement property. | |
| #define | SBOL_REFINEMENT_VERIFY_IDENTICAL SBOL_URI "#verifyIdentical" |
| Option for MapsTo::refinement property. | |
| #define | SBOL_REFINEMENT_MERGE SBOL_URI "#merge" |
| Option for MapsTo::refinement property. | |
| #define | SBOL_ROLE_INTEGRATION_MERGE SBOL_URI "#mergeRoles" |
| Option for SequenceAnnotation::roleIntegration or Component::roleIntegration property. | |
| #define | SBOL_ROLE_INTEGRATION_OVERRIDE SBOL_URI "#overrideRoles" |
| Option for SequenceAnnotation::roleIntegration or Component::roleIntegration property. | |
| #define | SBOL_DESIGN SBOL_URI "#design" |
| Option for Usage::roles or Association::roles. | |
| #define | SBOL_BUILD SBOL_URI "#build" |
| Option for Usage::roles or Association::roles. | |
| #define | SBOL_TEST SBOL_URI "#test" |
| Option for Usage::roles or Association::roles. | |
| #define | SBOL_LEARN SBOL_URI "#learn" |
| Option for Usage::roles or Association::roles. | |
| #define | SBO "http://identifiers.org/biomodels.sbo/SBO:" |
| Namespace for Systems Biology Ontology (SBO) terms. | |
| #define | SBO_INTERACTION SBO "0000343" |
| An SBO term and possible value for an Interaction::type property. | |
| #define | SBO_INHIBITION SBO "0000169" |
| An SBO term and possible value for an Interaction::type property. | |
| #define | SBO_GENETIC_PRODUCTION SBO "0000589" |
| An SBO term and possible value for an Interaction::type property. | |
| #define | SBO_NONCOVALENT_BINDING SBO "0000177" |
| An SBO term and possible value for an Interaction::type property. | |
| #define | SBO_STIMULATION SBO "0000170" |
| An SBO term and possible value for an Interaction::type property. | |
| #define | SBO_DEGRADATION SBO "0000179" |
| An SBO term and possible value for an Interaction::type property. | |
| #define | SBO_CONTROL SBO "0000168" |
| An SBO term and possible value for an Interaction::type property. | |
| #define | SBO_BIOCHEMICAL_REACTION SBO "0000176" |
| An SBO term and possible value for an Interaction::type property. | |
| #define | SBO_STIMULATED SBO "0000643" |
| An SBO term and possible value for an Interaction::type property. | |
| #define | SBO_CONVERSION SBO "0000182" |
| An SBO term and possible value for an Interaction::type property. | |
| #define | SBO_PROMOTER SBO "0000598" |
| An SBO term and possible value for an Participant::role property. | |
| #define | SBO_GENE SBO "0000243" |
| An SBO term and possible value for an Participant::role property. | |
| #define | SBO_INHIBITOR SBO "0000020" |
| An SBO term and possible value for an Participant::role property. | |
| #define | SBO_INHIBITED SBO "0000642" |
| An SBO term and possible value for an Participant::role property. | |
| #define | SBO_STIMULATOR SBO "0000459" |
| An SBO term and possible value for an Participant::role property. | |
| #define | SBO_REACTANT SBO "0000010" |
| An SBO term and possible value for an Participant::role property. | |
| #define | SBO_PRODUCT SBO "0000011" |
| An SBO term and possible value for an Participant::role property. | |
| #define | SBO_LIGAND SBO "0000280" |
| An SBO term and possible value for an Participant::role property. | |
| #define | SBO_NONCOVALENT_COMPLEX SBO "0000253" |
| An SBO term and possible value for an Participant::role property. | |
| #define | SBO_BINDING_SITE SBO "0000494" |
| An SBO term and possible value for an Participant::role property. | |
| #define | SBO_PRODUCT SBO "0000011" |
| An SBO term and possible value for an Participant::role property. | |
| #define | SO "http://identifiers.org/so/SO:" |
| Namespace for Sequence Ontology (SO) terms. | |
| #define | SO_MISC SO "0000001" |
| An SO term and possible value for ComponentDefinition::role property. | |
| #define | SO_GENE SO "0000704" |
| An SO term and possible value for ComponentDefinition::role property. | |
| #define | SO_PROMOTER SO "0000167" |
| An SO term and possible value for ComponentDefinition::role property. | |
| #define | SO_CDS SO "0000316" |
| An SO term and possible value for ComponentDefinition::role property. | |
| #define | SO_RBS SO "0000139" |
| An SO term and possible value for ComponentDefinition::role property. | |
| #define | SO_TERMINATOR SO "0000141" |
| An SO term and possible value for ComponentDefinition::role property. | |
| #define | SO_SGRNA SO "0001998" |
| An SO term and possible value for ComponentDefinition::role property. | |
| #define | SO_LINEAR SO "0000987" |
| An SO term and possible value for ComponentDefinition::role property. | |
| #define | SO_CIRCULAR SO "0000988" |
| An SO term and possible value for ComponentDefinition::role property. | |
| #define | SO_PLASMID SO "0000155" |
| An SO term and possible value for ComponentDefinition::role property. | |
| #define | BIOPAX_DNA "http://www.biopax.org/release/biopax-level3.owl#DnaRegion" |
| DNA. More... | |
| #define | BIOPAX_RNA "http://www.biopax.org/release/biopax-level3.owl#RnaRegion" |
| RNA. More... | |
| #define | BIOPAX_PROTEIN "http://www.biopax.org/release/biopax-level3.owl#Protein" |
| PROTEIN. More... | |
| #define | BIOPAX_SMALL_MOLECULE "http://www.biopax.org/release/biopax-level3.owl#SmallMolecule" |
| SMALL_MOLECULE. More... | |
| #define | BIOPAX_COMPLEX "http://www.biopax.org/release/biopax-level3.owl#Complex" |
| COMPLEX. More... | |
| #define | EDAM_SBML "http://identifiers.org/edam/format_2585" |
| An EDAM ontology term and option for Model::language. | |
| #define | EDAM_CELLML "http://identifiers.org/edam/format_3240" |
| An EDAM ontology term and option for Model::language. | |
| #define | EDAM_BIOPAX "http://identifiers.org/edam/format_3156" |
| An EDAM ontology term and option for Model::language. | |
| #define | SBO_CONTINUOUS SBO "0000062" |
| SBO term and option for Model::framework. | |
| #define | SBO_DISCRETE SBO "0000063" |
| SBO term and option for Model::framework. | |
Detailed Description
Users of libSBOL may find in this file useful and important symbols corresponding to commonly used ontological terms from the Sequence Ontology, Systems Biology Ontology, BioPAX, etc.
A number of flags internal to the SBOL standard are also defined here. Finally, for developers and maintains of libSBOL, this file contains important URIs in the SBOL namespace, some of which can be used to control the appearance of the RDF/XML serialization.
Macro Definition Documentation
◆ BIOPAX_COMPLEX
| #define BIOPAX_COMPLEX "http://www.biopax.org/release/biopax-level3.owl#Complex" |
COMPLEX.
A BioPax term and possible value for ComponentDefinition::type property
◆ BIOPAX_DNA
| #define BIOPAX_DNA "http://www.biopax.org/release/biopax-level3.owl#DnaRegion" |
DNA.
A BioPax term and possible value for ComponentDefinition::type property
◆ BIOPAX_PROTEIN
| #define BIOPAX_PROTEIN "http://www.biopax.org/release/biopax-level3.owl#Protein" |
PROTEIN.
A BioPax term and possible value for ComponentDefinition::type property
◆ BIOPAX_RNA
| #define BIOPAX_RNA "http://www.biopax.org/release/biopax-level3.owl#RnaRegion" |
RNA.
A BioPax term and possible value for ComponentDefinition::type property
◆ BIOPAX_SMALL_MOLECULE
| #define BIOPAX_SMALL_MOLECULE "http://www.biopax.org/release/biopax-level3.owl#SmallMolecule" |
SMALL_MOLECULE.
A BioPax term and possible value for ComponentDefinition::type property
