toSBML {CellNOptR} | R Documentation

## Export the network to SBML-qual format

### Description

Export a Boolean network <network> to an sbml-qual file <fileName>. This file can then be read in using other software that supports SBMLqual standards.

The function also takes a bit string as input. It cuts the model according to the values in bitstrings and write the new model object to SBMLqual.

### Usage

    toSBML(network, file, bitString = c(rep(1,length(network$reacID))),version=c("standard","cellnopt"))

### Arguments

`network` | a valid CellNOptR network model created by e.g. readSIF()
`file` | a valid filename to save the SBMLqual model
`bitString` | optional vector of binary values (for example the resulted bitString from optimisation) to cut the unnecessary interactions from the network before exporting.
`version` | defines the format of SBMLqual file, read details.

### Details

`version = "standard"` exports one transition block for each node of the network. This format is the SBMLqual standard, that can be imported then with other softwares

`version = "cellnopt"` the exported file follows a simplified syntax, where each edge of the network is transformed to a transition block in the SBMLqual file. Can be later imported to CellNOptR again.

### Author(s)

Francesco Ceccarelli

[Package CellNOptR version 1.40.0 Index]