dot-make.sbml: Create an SBML model from Tables

In a-kramer/SBtabVFGEN: Converts from SBtab to vf,mod,[sbml]

Create an SBML model from Tables

Description

This function creates a character vector that contains the biological model in SBML form. The return value can be written into a file to create an SBML document.

Usage

.make.sbml(
  H,
  Defaults,
  Constant = NULL,
  Parameter,
  Input = NULL,
  Expression = NULL,
  Reaction,
  Compound,
  Output,
  Comp
)

Arguments

H	model header, a Model identifying string
Defaults	A data.frame with default units
Constant	Table of Constants for this model [optional]
Parameter	Table of Parameters
Input	Table of input parameters, treated the same as normal Parameters
Expression	will be interpreted and transformed into somthing that SBML understands (optional)
Reaction	Table of reactions
Compound	Table of species (reacting compounds)
Output	Table of output functions (a model of measurement/observables)
Comp	Table of Compartments

Details

The input is an SBtab model as data.frames

Value

SBML model as a character vector

a-kramer/SBtabVFGEN documentation built on Dec. 15, 2024, 1:52 a.m.