getReactionInfo: Title

In dlill/petab: PEtab support for R

Title

Description

Title

Usage

getReactionInfo(equationList, parInfo = getParInfo(equationList))

Arguments

el
p

Value

list of reactions

Author(s)

Daniel Lill ([e-mail])

Daniel Lill ([e-mail])

See Also

Other SBML export: eqnlist_addDefaultCompartment(), getCompartmentInfo(), getParInfo(), getSpeciesInfo(), getUnitInfo(), sbml_addOneCompartment(), sbml_addOneEvent(), sbml_addOneParameter(), sbml_addOneReaction(), sbml_addOneSpecies(), sbml_addOneUnit(), sbml_exportEquationList(), sbml_initialize(), sbml_kineticLawAddParameters(), sbml_reactionAddKineticLaw(), sbml_reactionAddModifiers(), sbml_reactionAddProducts(), sbml_reactionAddReactants(), sbml_validateSBML()

Examples

# simple
el <- NULL
el <- addReaction(el, from = "E + S", to = "ES", rate = "(kon)*E*S",
                  description = "production of complex")
el <- addReaction(el, from = "ES", to = "E + S", rate = "koff*ES",
                  description = "decay of complex")
el <- addReaction(el, from = "ES", to = "E + P", rate = "kcat*ES",
                  description = "production of product")
el <- eqnlist_addDefaultCompartment(el, "cytoplasm") # Need compartment information for SBML
equationList <- el
parInfo = getParInfo(equationList)

# complex stoichiometries, modifier in production of complex
el <- NULL
el <- addReaction(el, from = "2*E + S", to = "ES", rate = "(kon)*E*S * 1/(1+kinh*P)",
                  description = "production of complex")
el <- addReaction(el, from = "ES", to = "2*E + S", rate = "koff*ES",
                  description = "decay of complex")
el <- addReaction(el, from = "ES", to = "E + P", rate = "kcat*ES",
                  description = "production of product")
el <- eqnlist_addDefaultCompartment(el, "cytoplasm") # Need compartment information for SBML
equationList <- el
parInfo = getParInfo(equationList)

getReactionInfo(equationList,parInfo)

dlill/petab documentation built on Oct. 9, 2022, 3:07 p.m.