readSBMLQual {CellNOptR} | R Documentation

## Read a SBMLQual document and returns a SIF object (as returned by readSIG

### Description

This function reads a SBMLQual XML file where a model is stored. The XML is scanned and saved in SIF format in a temporary file. This file is read by readSIF. The returned object is therefore the output of readSIF.

### Usage

    readSBMLQual(filename)

### Arguments

`filename` | The name of a SBMLQual file.

### Value

a model list with fields:

`interMat` | contains a matrix with column for each reaction and a row for each species, with a -1 where the species is the source node and a +1 where the species is a target node, and 0 otherwise
`notMat` | has the same format as interMat but just contains a 1 if the source node enters the reac with a negative effect, and 0 otherwise
`namesSpecies` | vector that contains the names of the species in the same order as the rows of the interMat and notMat matrices
`reacID` | vector that holds character strings specifying the reaction in full letters, in the same order as the columns of interMat and notMat

### Author(s)

T. Cokelaer

### References

SBMLQual: qualitative models. See SBML.org for details.

### Examples

    ## Not run:
    sif = readSBMLQual("test.xml")

    ## End(Not run)

[Package CellNOptR version 1.40.0 Index]