buildSBMLFromReactionIDs {BiGGR} | R Documentation

## Build an SBML model for specific reactions in a given database

### Description

Creates an SBML model containing all species, reactions and compartments that are associated with a number of reaction identifiers in the database document (e.g. Recon2) passed as an argument.

### Usage

    buildSBMLFromReactionIDs(reaction.ids, database)

### Arguments

`reaction.ids` | a `character` or a `vector` or `list` of `character` containing the names of the query reaction IDs
`database` | an object of class `SBMLDocument`

### Value

a rsbml `Model` object containing all reactions, species and compartments that are present in the database for the query reaction(s) or NULL if none of the query reaction IDs is found in the database.

### Author(s)

Anand Gavai, Hannes Hettling

### References

Thiele, I. et al. Nat Biotech, 2013

### See Also

`buildSBMLFromGenes`

### Examples

    ##get list of reactions with Recon 2 identifiers from examples
    path <- system.file("extdata", "Glycolysis_TCA_recon2_reactionIDs.txt", package="BiGGR")
    reaction.ids <- scan(path, what=" ")

    data("Recon2")
    model <- buildSBMLFromReactionIDs(reaction.ids, Recon2)

[Package BiGGR version 1.16.0 Index]