Package org.episteme.natural.biology.loaders.biopax

package org.episteme.natural.biology.loaders.biopax

BioPAX loader for biological pathways and networks.

Parses BioPAX Level 3 files containing metabolic, signaling, and regulatory pathway data.

See Also:

• BioPAX.org

Related Packages

Package	Description
org.episteme.natural.biology.loaders
org.episteme.natural.biology.loaders.itis	Biological taxonomy, genetics, and physiological modeling.
org.episteme.natural.biology.loaders.neuroml	NeuroML loader for computational neuroscience models.
org.episteme.natural.biology.loaders.pdbml	PDBML loader for Protein Data Bank macromolecular structures.
org.episteme.natural.biology.loaders.phyloxml	PhyloXML loader for phylogenetic tree data.
org.episteme.natural.biology.loaders.sbml	Systems Biology Markup Language (SBML) loader for Episteme.

Class	Description
BioPAXBiochemicalReaction	BioPAX Biochemical Reaction DTO.
BioPAXBridge	Bridge for converting BioPAX DTOs to core Episteme biological pathway objects.
BioPAXCatalysis	BioPAX Catalysis DTO.
BioPAXException	BioPAX parsing exception.
BioPAXInteraction	BioPAX Interaction DTO.
BioPAXModel	BioPAX model containing pathways, entities, and interactions.
BioPAXPathway	BioPAX Pathway DTO.
BioPAXPhysicalEntity	BioPAX Physical Entity DTO.
BioPAXReader	BioPAX Reader for biological pathways and networks.
BioPAXXref	BioPAX Xref DTO.