Uses of Class
de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.biopax.HelperClass

Packages that use HelperClass

Package	Description
de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.biopax.lvl3interactions
de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.biopax.lvl3utility
de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.exporters.biopax
de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.biopax
de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.biopax.lvl2interactions
de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.biopax.lvl2utility

Uses of HelperClass in de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.biopax.lvl3interactions

Subclasses of HelperClass in de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.biopax.lvl3interactions

Modifier and Type	Class	Description
class	BPBiochemicalReaction
class	BPCatalysis
class	BPComplexAssembly
class	BPControl
class	BPConversion
class	BPDegradation
class	BPGeneticInteraction
class	BPInteraction	interface for all interactions when a model is read and a graph is created
class	BPModulation
class	BPMolecularInteraction
class	BPTemplateReaction
class	BPTemplateReactionRegulation
class	BPTransport
class	BPTransportWithBiochemicalReaction
class	PathWayHandler

Uses of HelperClass in de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.biopax.lvl3utility

Subclasses of HelperClass in de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.biopax.lvl3utility

Modifier and Type	Class	Description
class	StoichiometryWriter	writes on one edge a Stochiometry and reads it again
class	UBioChemicalReaction
class	UCatalysis
class	UComplex
class	UComplexAssembly
class	UControl
class	UConversion
class	UDegradation
class	UDna
class	UDnaRegion
class	UGene
class	UGeneticInteraction
class	UModulation
class	UMolecularInteraction
class	UPathway
class	UPhysicalEntity
class	UProtein
class	URna
class	URnaRegion
class	USmallMolecule
class	UTemplateReaction
class	UTemplateReactionRegulation
class	UtilityClassSelectorFromGraph	this class and its static method transforms a attributes on a node to an biopax element
class	UtilitySuperClassFromGraph	this class's functions gets all available attributes and helps to write them into an owl model
class	UtilitySuperClassToGraph	this class's functions sets attributes to each node
class	UTransport
class	UTransportWithBiochemicalReaction

Uses of HelperClass in de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.exporters.biopax

Subclasses of HelperClass in de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.exporters.biopax

Modifier and Type	Class	Description
class	BioPAX_OWL_Writer	Takes a graph with a biochemical pathway, filters all attributes that could possibly belong to a BioPax-File and creates and OWL-File out of it

Uses of HelperClass in de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.biopax

Subclasses of HelperClass in de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.biopax

Modifier and Type	Class	Description
class	PathWayLoaderLvL2	This Class sets the related pathway information to each node of the graph
class	PathWayLoaderLvL3	This Class sets the related pathway information to each node of the graph

Uses of HelperClass in de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.biopax.lvl2interactions

Subclasses of HelperClass in de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.biopax.lvl2interactions

Modifier and Type	Class	Description
class	BPbiochemicalReaction
class	BPcatalysis
class	BPcomplexAssembly
class	BPcontrol
class	BPconversion
class	BPinteraction	interface for all interactions when a model is read and a graph is created each class has an own read and "write" method for exporting and importing.
class	BPmodulation
class	BPphysicalInteraction
class	BPtransport
class	BPtransportWithBiochemicalReaction
class	PathWayHandler

Uses of HelperClass in de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.biopax.lvl2utility

Subclasses of HelperClass in de.ipk_gatersleben.ag_nw.graffiti.plugins.ios.importers.biopax.lvl2utility

Modifier and Type	Class	Description
class	StoichiometryWriter	writes on one edge a Stochiometry and reads it again
class	UbioChemicalReaction
class	Ucatalysis
class	Ucomplex
class	UcomplexAssembly
class	Ucontrol
class	Uconversion
class	Udna
class	Umodulation
class	Upathway
class	UphysicalEntity
class	UphysicalInteraction
class	Uprotein
class	Urna
class	UsmallMolecule
class	UtilitySuperClassToGraph	this class's functions sets attributes to each node
class	Utransport
class	UtransportWithBiochemicalReaction