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Edge — Class in package edu.stanford.covertlab.diagram.core
	Displays a pictorial representation of a "connection" between two biomolecules.
Edge(diagram:edu.stanford.covertlab.diagram.core:Diagram, from:edu.stanford.covertlab.diagram.core:Biomolecule, to:edu.stanford.covertlab.diagram.core:Biomolecule, sense) — Constructor in class edu.stanford.covertlab.diagram.core.Edge
edges — Property in class edu.stanford.covertlab.diagram.core.CompartmentBase
edges — Property in class edu.stanford.covertlab.diagram.core.Diagram
edges — Property in class edu.stanford.covertlab.networkanalyzer.manager.NetworkManager
editable — Property in class edu.stanford.covertlab.networkanalyzer.window.ManageNetworksWindow
EditBiomoleculeStyleWindow — Class in package edu.stanford.covertlab.diagram.window
	PopUp window user interface for editing a biomolecule style.
EditBiomoleculeStyleWindow(diagram:edu.stanford.covertlab.diagram.core:Diagram, biomoleculeStyle:edu.stanford.covertlab.diagram.core:BiomoleculeStyle) — Constructor in class edu.stanford.covertlab.diagram.window.EditBiomoleculeStyleWindow
EditBiomoleculeWindow — Class in package edu.stanford.covertlab.diagram.window
	PopUp window user interface for editing a biomolecule.
EditBiomoleculeWindow(diagram:edu.stanford.covertlab.diagram.core:Diagram, biomolecule:edu.stanford.covertlab.diagram.core:Biomolecule) — Constructor in class edu.stanford.covertlab.diagram.window.EditBiomoleculeWindow
EditCompartmentWindow — Class in package edu.stanford.covertlab.diagram.window
	PopUp window user interface for editing a compartment.
EditCompartmentWindow(diagram:edu.stanford.covertlab.diagram.core:Diagram, compartment:edu.stanford.covertlab.diagram.core:Compartment, addUpperCompartment:edu.stanford.covertlab.diagram.core:Compartment) — Constructor in class edu.stanford.covertlab.diagram.window.EditCompartmentWindow
editingEnabled — Property in class edu.stanford.covertlab.diagram.core.Diagram
edu.stanford.covertlab.analysis — Package
edu.stanford.covertlab.chart — Package
edu.stanford.covertlab.colormap — Package
edu.stanford.covertlab.controls — Package
edu.stanford.covertlab.diagram.core — Package
edu.stanford.covertlab.diagram.event — Package
edu.stanford.covertlab.diagram.history — Package
edu.stanford.covertlab.diagram.overview — Package
edu.stanford.covertlab.diagram.panel — Package
edu.stanford.covertlab.diagram.toolbar — Package
edu.stanford.covertlab.diagram.window — Package
edu.stanford.covertlab.event — Package
edu.stanford.covertlab.graphics — Package
edu.stanford.covertlab.graphics.decorators — Package
edu.stanford.covertlab.graphics.printer — Package
edu.stanford.covertlab.graphics.rasterizer — Package
edu.stanford.covertlab.graphics.renderablerepeater — Package
edu.stanford.covertlab.graphics.renderer — Package
edu.stanford.covertlab.graphics.shape — Package
edu.stanford.covertlab.manager — Package
edu.stanford.covertlab.networkanalyzer — Package
edu.stanford.covertlab.networkanalyzer.data — Package
edu.stanford.covertlab.networkanalyzer.event — Package
edu.stanford.covertlab.networkanalyzer.ExchangeFormat — Package
edu.stanford.covertlab.networkanalyzer.manager — Package
edu.stanford.covertlab.networkanalyzer.preloader — Package
edu.stanford.covertlab.networkanalyzer.simulation — Package
edu.stanford.covertlab.networkanalyzer.viewer — Package
edu.stanford.covertlab.networkanalyzer.viewer.data — Package
edu.stanford.covertlab.networkanalyzer.window — Package
edu.stanford.covertlab.service — Package
edu.stanford.covertlab.util — Package
edu.stanford.covertlab.window — Package
EllipseShape — Class in package edu.stanford.covertlab.graphics.shape
	Draws an ellipse.
EllipseShape(size, strokeColor, fillColor) — Constructor in class edu.stanford.covertlab.graphics.shape.EllipseShape
email — Property in class edu.stanford.covertlab.manager.UserManager
enabled — Property in class edu.stanford.covertlab.controls.ToolBarButton
enabled — Property in class edu.stanford.covertlab.controls.ToolBarCanvasButton
encode(os) — Method in class org.gif.encoder.LZWEncoder
end — Property in class flash.geom.Bezier
	End anchor point of Bezier curve.
end — Property in interface flash.geom.IParametric
	Last point of figure
__end — Property in class flash.geom.Line
end — Property in class flash.geom.Line
	Final bearing(anchor) point of piece of line.
EndoplasmicReticulumShape — Class in package edu.stanford.covertlab.graphics.shape
	Draws an endoplasmic reticulum.
EndoplasmicReticulumShape(size, strokeColor, fillColor) — Constructor in class edu.stanford.covertlab.graphics.shape.EndoplasmicReticulumShape
endPoint — Property in class flash.geom.Bezier
endQuery — Event in class phi.db.Query
	Dispatched after the SQL statement was executed.
ENTITIES — Constant static property in class edu.stanford.covertlab.util.HTML
entitiesToDecimal(text) — Static method in class edu.stanford.covertlab.util.HTML
entity — Property in class edu.stanford.covertlab.diagram.history.HistoryAction
equation — Property in class edu.stanford.covertlab.networkanalyzer.manager.ExperimentManager
Equations — Class in package flash.math
	В классе представлены методы для решения уравнений с 1 неизвестным. Если в уравнении n-ой степени ведущие коэффициенты нулевые, то все равно можно использовать метод для n-ой степени, нужный метод перевызовется автоматически. Погрешность решения составляет порядка 10^-5.
EQUATIONS — Constant static property in class edu.stanford.covertlab.networkanalyzer.manager.ExperimentManager
error — Property in class edu.stanford.covertlab.service.CytoBank
error — Property in class edu.stanford.covertlab.service.KEGG
error — Property in class edu.stanford.covertlab.service.NetworkAnalyzer
error — Property in class edu.stanford.covertlab.service.Reactome
errorMsg — Property in class edu.stanford.covertlab.networkanalyzer.window.ManageNetworksWindow
errorQuery — Event in class phi.db.Query
	Dispatched when the SQL statement contains errors.
escapeMySQL(text) — Static method in class edu.stanford.covertlab.util.HTML
escapeXML(text) — Static method in class edu.stanford.covertlab.util.HTML
execute(q, option) — Method in class phi.db.Query
	Execte a SQL statement.
execute(q, option) — Method in interface phi.interfaces.IQuery
	Execte a SQL statement.
experiment — Property in class edu.stanford.covertlab.networkanalyzer.manager.ExperimentManager
experiment — Property in class edu.stanford.covertlab.service.CytoBank
Experiment — Class in package edu.stanford.covertlab.networkanalyzer.viewer.data
EXPERIMENT_ASSOCIATIONS_UPDATED — Constant static property in class edu.stanford.covertlab.networkanalyzer.event.ExperimentManagerEvent
experimentManager — Property in class edu.stanford.covertlab.networkanalyzer.manager.NetworkManager
ExperimentManager — Class in package edu.stanford.covertlab.networkanalyzer.manager
	Handles several experiment-related operations.
ExperimentManager(application, userManager:edu.stanford.covertlab.manager:UserManager, networkManager:edu.stanford.covertlab.networkanalyzer.manager:NetworkManager, diagram:edu.stanford.covertlab.diagram.core:Diagram, db:phi.interfaces:IDatabase) — Constructor in class edu.stanford.covertlab.networkanalyzer.manager.ExperimentManager
ExperimentManagerEvent — Class in package edu.stanford.covertlab.networkanalyzer.event
	Event class for ExperimentManager.
ExperimentManagerEvent(type) — Constructor in class edu.stanford.covertlab.networkanalyzer.event.ExperimentManagerEvent
experiments — Property in class edu.stanford.covertlab.service.CytoBank
export(network, metaData) — Static method in class edu.stanford.covertlab.networkanalyzer.ExchangeFormat.BioPax
export(network, metaData) — Static method in class edu.stanford.covertlab.networkanalyzer.ExchangeFormat.CellML
export(network, metaData, version) — Static method in class edu.stanford.covertlab.networkanalyzer.ExchangeFormat.SBML
exportAnimationFrameRate — Property in class edu.stanford.covertlab.diagram.core.Diagram
exportAnimationFrameRate — Property in class edu.stanford.covertlab.networkanalyzer.manager.NetworkManager
exportAssociations() — Method in class edu.stanford.covertlab.networkanalyzer.manager.ExperimentManager
exportColorBiomoleculesByValue — Property in class edu.stanford.covertlab.diagram.core.Diagram
exportColorBiomoleculesByValue — Property in class edu.stanford.covertlab.networkanalyzer.manager.NetworkManager
exportColorScale(format) — Method in class edu.stanford.covertlab.networkanalyzer.manager.ExperimentManager
exportExperiment(format) — Method in class edu.stanford.covertlab.networkanalyzer.manager.ExperimentManager
	exporting
exportMaxAnimationLoops — Property in class edu.stanford.covertlab.diagram.core.Diagram
exportMaxAnimationLoops — Property in class edu.stanford.covertlab.networkanalyzer.manager.NetworkManager
exportNetwork(format) — Method in class edu.stanford.covertlab.networkanalyzer.manager.NetworkManager
	exporting/importing
exportPerturbations() — Method in class edu.stanford.covertlab.networkanalyzer.manager.ExperimentManager
exportShowBiomoleculeSelectedHandles — Property in class edu.stanford.covertlab.diagram.core.Diagram
	rendering, printing
exportShowBiomoleculeSelectedHandles — Property in class edu.stanford.covertlab.networkanalyzer.manager.NetworkManager
externalCentroid — Property in class flash.geom.Bezier
	Gravity center of the figure limited by Bezier curve and lines SC and CE.
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