All Classes and Interfaces

Class	Description
AbstractEdge	The base class for an edge in the traversed graph.
AbstractGraph	Adapter class for a graph that is queried.
AbstractNode
BFS	Implements breadth-first search.
CommonStreamQuery	Searches common downstream or common upstream of a specified set of entities based on the given direction within the boundaries of a specified length limit.
ControlWrapper	Wrapper for the Control class.
ControlWrapper	Wrapper for the Control class.
ConversionWrapper	Wrapper for the Conversion class.
CycleBreaker	When an algorithm searches for a paths between multiple source nodes, or from a source to a target node (source and targets may overlap), sometimes there comes paths from and to the same node, i.e cycles.
DataSourceFilter	Filter by data source.
Direction	Direction is used for specifying upstream, downstream or both.
Edge	Wrapper interface for edges in a graph to be queried.
EdgeL3	Wrapper for links between L3 objects.
EdgeL3	Wrapper for links between L3 objects.
EventWrapper	This is the parent wrapper class for both Conversion and TemplateReaction objects.
EventWrapper	This is the parent wrapper class for both Conversion and TemplateReaction objects.
Filter	This is the base filter class that can be applied to any level 3 element.
Graph	This graph interface is used in graph algorithms.
GraphL3	Wrapper for L3 Graphs.
GraphL3Undirected	Wrapper for L3 Graphs.
GraphObject	A graph object is the common interface for nodes and edges in a graph.
InteractionWrapper	Wrapper for Interaction class, excluding Control objects.
LimitType	Specifies whether the length limit is a normal limit or shortest_plus_k limit.
NeighborhoodQuery	Searches the neighborhood of given source set of nodes
Node	Node interface to use in graph algorithms.
OrganismFilter	Filter by organism.
PathsBetweenQuery	Finds the paths between the specified source set of states within the boundaries of a specified length limit.
PathsFromToQuery	Finds the paths from a specified source set of states or entities to a specified target set of states or entities within the boundaries of a specified length limit.
PhysicalEntityWrapper	Wrapper for PhysicalEntity.
PhysicalEntityWrapper	Wrapper for PhysicalEntity.
Prune	This algorithm is used internally by PathsBetween and PathsFromTo algorithms.
QueryExecuter	This class provides static methods to execute graph queries.
StringFieldFilter	This is the base class for filters that are filtering based on values of specific fields of the objects and their related objects.
TemplateReactionWrapper	Wrapper for TemplateReaction class.
UbiqueFilter	Filters out ubiquitous entities, whose IDs are supplied by user.