Table of the species in a model

Lists each species with its initial value, compartment and flags.

Usage

getSpeciesTable(input_model)

Arguments

input_model

input should be an SBML Model

Value

a data frame with one row per species and columns Number, Name, ID, InitialConcentration, InitialAmount, Compartment, CompartmentVol, BoundaryCondition and Constant

Examples

sbml_file <- system.file("examples", "sbmlsimple.xml", package = "r2sbml")
model <- getModel(sbml_file)
#> 
#>   filename: /home/runner/work/_temp/Library/r2sbml/examples/sbmlsimple.xml
#>   error(s): 0
#> 
#> 
#> File: /home/runner/work/_temp/Library/r2sbml/examples/sbmlsimple.xml (Level 3, version 2)
getSpeciesTable(model)
#>   Number Name ID InitialConcentration InitialAmount Compartment CompartmentVol
#> 1      1       E                  NaN         5e-21        comp          1e-14
#> 2      2       S                  NaN         1e-20        comp          1e-14
#> 3      3       P                  NaN         0e+00        comp          1e-14
#> 4      4      ES                  NaN         0e+00        comp          1e-14
#>   BoundaryCondition Constant
#> 1                 0    FALSE
#> 2                 0    FALSE
#> 3                 0    FALSE
#> 4                 0    FALSE