Package fr.curie.BiNoM.pathways

Set of converters for conversion of one systems biology format into an other.

See:
Description

Class Summary

BioPAXToCytoscapeConverter	Converts BioPAX (represented by BioPAX object) to XGMML (represented by GraphDocument object)
BioPAXToCytoscapeConverter.Graph	Little auxillary container for BioPAX and GraphDocument object
BioPAXToCytoscapeConverter.Option	Set of conversion options
BioPAXToSBMLConverter	Converts BioPAX (represented by BioPAX object) to SBML (represented by org.sbml.x2001.ns.celldesigner.SbmlDocument object)
CellDesignerColorSpecies
CellDesignerToBioPAXConverter	Implementation of converter from CellDesigner 3.* file to BioPAX
CellDesignerToCytoscapeConverter	Direct converter from CellDesigner to Cytoscape.
CellDesignerToCytoscapeConverter.Graph	Simple container for GraphDocument and SbmlDocument objects
CytoscapeToBioPAXConverter	Deprecated class.
CytoscapeToCellDesignerConverter	Class used to export a part of CellDesigner file, using only species and reactions visualized in the current Cytoscape network
parseBioPAX	Utility class for listing some BioPAX information as a readable text
parseCellDesigner	Utility class for listing some CellDesigner information as a readable text

Package fr.curie.BiNoM.pathways Description

Set of converters for conversion of one systems biology format into an other.

Related Documentation

For tutorial and examples and tool documentation, please see:

• BiNoM tool page