Reaction-class: SBML type "Reaction"

In rsbml: R support for SBML, using libsbml

Description

Any transformation, transportation or binding process that changes the quantity of one or more Species.

Instantiation

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

Slots

id:

Object of class "character" uniquely identifying this component.

name:

Object of class "character" naming this component.

reactants:

Object of class "list" containing SpeciesReferences specifying the Species that are reactants for this reaction. The names of the list correspond to the IDs of the species.

products:

Object of class "list" containing SpeciesReferences specifying the Species that are products for this reaction. The names of the list correspond to the IDs of the species.

modifiers:

Object of class "list" containing ModifierSpeciesReferences specifying the Species that are modifiers for this reaction. The names of the list correspond to the IDs of the species.

kineticLaw:

Object of class "KineticLaw" that dynamically defines the rate of the reaction.

reversible:

Object of class "logical" indicating whether the direction of this reaction is reversible.

fast:

Object of class "logical" indicating whether this reaction should be considered instantaneous relative to non-fast reactions.

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 "SBase", directly.

Methods

id

signature(object = "Reaction"): gets the id slot

id<-

signature(object = "Reaction"): sets the id slot

name

signature(object = "Reaction"): gets the name slot

name<-

signature(object = "Reaction"): sets the name slot

fast

signature(object = "Reaction"): gets the fast slot

fast<-

signature(object = "Reaction"): sets the fast slot

kineticLaw

signature(object = "Reaction"): gets the kineticLaw slot

kineticLaw<-

signature(object = "Reaction"): sets the kineticLaw slot

modifiers

signature(object = "Reaction"): gets the modifiers slot

modifiers<-

signature(object = "Reaction"): sets the modifiers slot

products

signature(object = "Reaction"): gets the products slot

products<-

signature(object = "Reaction"): sets the products slot

reactants

signature(object = "Reaction"): gets the reactants slot

reactants<-

signature(object = "Reaction"): sets the reactants slot

reversible

signature(object = "Reaction"): gets the reversible slot

reversible<-

signature(object = "Reaction"): sets the reversible slot

Author(s)

Michael Lawrence

References

http://sbml.org/documents/

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