summary.SBMLR: Get summary information from an SBMLR model

Description

This function extracts information from a model of class SBMLR and returns it as a list. The list includes species and reaction information tabularized as data frames.

Usage

"summary"(object,...)

Arguments

object

A model object of class SBMLR from which information is to be extracted.

...

For compatibility with summary of the base package.

Value

BC: A logical vector indicating which species are not state variables, i.e. which species are boundary conditions or auxillary variables.
y0: The initial state (boundary conditions excluded!).
nStates: The length of the state vector, i.e. the number of system states.
S0: The full set of species initial values.
nReactions: The number of reactions.
nSpecies: The number of species, including states, boundary conditions and possibly auxillary variables such as the total concentration of dihydofolate reductase in the morrison.r model.
incid: The incidence/stoichiometry matrix. This usually contains ones and minus ones corresponding to fluxes either synthesizing or degrading (respectively) a state variable chemical species. This matrix multiplied by the flux vector on its right yields the corresponding concentration state variable time derivatives.
species: Species information (i.e. names, ICs, BCs, and compartments) as a data frame.
reactions: Reaction information tabularized as a dataframe, including string laws and initial fluxes.

Details

no details

Examples

Run this code

library(SBMLR)  
curto=readSBMLR(file.path(system.file(package="SBMLR"), "models/curto.r"))  
summary(curto)

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