Package org.colomoto.biolqm

Core for the bioLQM toolkit: Main data structures for Logical Models Service loader and manager Launcher and Command-Line Interface Script mode

See: Description

Interface Summary

Interface	Description
LogicalModel	A LogicalModel is a ready to use object containing all necessary information to perform simulations and analysis, without the editing facilities provided by a full RegulatoryGraph.
NodeInfoHolder	An object containing a NodeInfo
Service	Simple service description interface.
StatefulLogicalModel	Extension of a logical model with the possibility to store initial states and oracles

Class Summary

Class	Description
ConnectivityMatrix	Build and consult regulatory relations between variables in a Logical Model.
ExtensionLoader	Helper class to support extensions.
HelperTool	Locate and call external tools.
LogicalModelComparator	Test if two logical models share the same variables and equivalent functions
LogicalModelImpl	Implementation of the LogicalModel interface.
LQMLauncher	Entry point to launch the bioLQM toolbox.
LQMScriptLauncher	Wrap common API to provide convenient access in scripts.
LQMServiceManager	Static service manager: list available "services" in LQM: formats modifiers
NodeInfo	Contains the basic informations of a regulatory node (gene) : - nodeID : a unique identifier for the gene - max : the maximal regulatory level
StatefulLogicalModelImpl	Extension of a logical model with the possibility to maintain a set of initial states and oracles. Implements the StatefulLogicalModel interface.

Package org.colomoto.biolqm Description

Core for the bioLQM toolkit:

• Main data structures for Logical Models
• Service loader and manager
• Launcher and Command-Line Interface
• Script mode