SpeciesReference-class: SBML type "SpeciesReference"

In rsbml: R support for SBML, using libsbml

Description

Binds a reactant or product Species to a Reaction.

Instantiation

Objects can be created by calls of the form new("SpeciesReference", ...).

Slots

stoichiometry:

Object of class "numeric" indicating the (static) stoichiometric coefficient.

stoichiometryMath:

Object of class "StoichiometryMath" that dynamically calculates the stoichiometric coefficient.

id:

Object of class "character" uniquely identifying this component.

species:

Object of class "character" identifying the Species being referenced.

metaId:

Object of class "character" that is an XML ID "described" by an RDF resource. This links an SBML element to an RDF resource. RDF may appear anywhere in an SBML element, but is usually placed inside the annotation element.

notes:

Object of class "character" containing user-readable XHTML notes about an element.

annotation:

Object of class "character" containing additional machine-readable information about an element, usually as RDF, such as BioPAX. This is where application-specific data belongs.

cvTerms:

Object of class "list" containing instances of CVTerm associated with this element.

sboTerm:

Object of class "integer" identifying a term in the Systems Biology Ontology (SBO).

Extends

Class "SimpleSpeciesReference", directly. Class "SBase", by class "SimpleSpeciesReference", distance 2.

Methods

stoichiometry

signature(object = "SpeciesReference"): gets the stoichiometry slot

stoichiometry<-

signature(object = "SpeciesReference"): sets the stoichiometry slot

stoichiometryMath

signature(object = "SpeciesReference"): gets the stoichiometryMath slot

stoichiometryMath<-

signature(object = "SpeciesReference"): sets the stoichiometryMath slot

Author(s)

Michael Lawrence

References

http://sbml.org/documents/

rsbml documentation built on Nov. 8, 2020, 8:09 p.m.