A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

A

AA_NOT_SET - Static variable in class ucl.physiol.neuroconstruct.utils.Display3DProperties
 
AA_OFF - Static variable in class ucl.physiol.neuroconstruct.utils.Display3DProperties
 
AA_ON - Static variable in class ucl.physiol.neuroconstruct.utils.Display3DProperties
 
AAX - Static variable in class ucl.physiol.neuroconstruct.mechanisms.TabHHMechanism
Deprecated.  
AAX_DESC - Static variable in class ucl.physiol.neuroconstruct.mechanisms.TabHHMechanism
Deprecated.  
AAY - Static variable in class ucl.physiol.neuroconstruct.mechanisms.TabHHMechanism
Deprecated.  
AAY_DESC - Static variable in class ucl.physiol.neuroconstruct.mechanisms.TabHHMechanism
Deprecated.  
ABSTRACTED_CELL_MECHANISM - Static variable in class ucl.physiol.neuroconstruct.mechanisms.CellMechanism
 
AbstractedCellMechanism - Class in ucl.physiol.neuroconstruct.mechanisms
Base class for all NON-ChannelML Cell Mechanisms.
AbstractedCellMechanism() - Constructor for class ucl.physiol.neuroconstruct.mechanisms.AbstractedCellMechanism
 
ABX - Static variable in class ucl.physiol.neuroconstruct.mechanisms.TabHHMechanism
Deprecated.  
ABX_DESC - Static variable in class ucl.physiol.neuroconstruct.mechanisms.TabHHMechanism
Deprecated.  
ABY - Static variable in class ucl.physiol.neuroconstruct.mechanisms.TabHHMechanism
Deprecated.  
ABY_DESC - Static variable in class ucl.physiol.neuroconstruct.mechanisms.TabHHMechanism
Deprecated.  
accept(File) - Method in class ucl.physiol.neuroconstruct.gui.SimpleFileFilter
 
actionPerformed(ActionEvent) - Method in class ucl.physiol.neuroconstruct.gui.AdapterEditor
 
actionPerformed(ActionEvent) - Method in class ucl.physiol.neuroconstruct.gui.CellGroupColourEditor
 
actionPerformed(ActionEvent) - Method in class ucl.physiol.neuroconstruct.gui.MainFrame_AboutBox
 
actionPerformed(ActionEvent) - Method in class ucl.physiol.neuroconstruct.gui.plotter.PlotterFrame.ApAnalysisMenuListener
 
actionPerformed(ActionEvent) - Method in class ucl.physiol.neuroconstruct.gui.plotter.PlotterFrame.DataSetAbsAreaMenuListener
 
actionPerformed(ActionEvent) - Method in class ucl.physiol.neuroconstruct.gui.plotter.PlotterFrame.DataSetAreaMenuListener
 
actionPerformed(ActionEvent) - Method in class ucl.physiol.neuroconstruct.gui.plotter.PlotterFrame.DataSetAutocorrMenuListener
 
actionPerformed(ActionEvent) - Method in class ucl.physiol.neuroconstruct.gui.plotter.PlotterFrame.DataSetColourMenuListener
 
actionPerformed(ActionEvent) - Method in class ucl.physiol.neuroconstruct.gui.plotter.PlotterFrame.DataSetDetachMenuListener
 
actionPerformed(ActionEvent) - Method in class ucl.physiol.neuroconstruct.gui.plotter.PlotterFrame.DataSetDistHistMenuListener
 
actionPerformed(ActionEvent) - Method in class ucl.physiol.neuroconstruct.gui.plotter.PlotterFrame.DataSetEditPointsMenuListener
 
actionPerformed(ActionEvent) - Method in class ucl.physiol.neuroconstruct.gui.plotter.PlotterFrame.DataSetExportMenuListener
 
actionPerformed(ActionEvent) - Method in class ucl.physiol.neuroconstruct.gui.plotter.PlotterFrame.DataSetFormatMenuListener
 
actionPerformed(ActionEvent) - Method in class ucl.physiol.neuroconstruct.gui.plotter.PlotterFrame.DataSetInfoMenuListener
 
actionPerformed(ActionEvent) - Method in class ucl.physiol.neuroconstruct.gui.plotter.PlotterFrame.DataSetISIHistMenuListener
 
actionPerformed(ActionEvent) - Method in class ucl.physiol.neuroconstruct.gui.plotter.PlotterFrame.DataSetListPointsMenuListener
 
actionPerformed(ActionEvent) - Method in class ucl.physiol.neuroconstruct.gui.plotter.PlotterFrame.DataSetMoveMenuListener
 
actionPerformed(ActionEvent) - Method in class ucl.physiol.neuroconstruct.gui.plotter.PlotterFrame.DataSetPeaksMenuListener
 
actionPerformed(ActionEvent) - Method in class ucl.physiol.neuroconstruct.gui.plotter.PlotterFrame.DataSetPhasePlanePlotMenuListener
 
actionPerformed(ActionEvent) - Method in class ucl.physiol.neuroconstruct.gui.plotter.PlotterFrame.DataSetQuickStatsMenuListener
 
actionPerformed(ActionEvent) - Method in class ucl.physiol.neuroconstruct.gui.plotter.PlotterFrame.DataSetRemoveMenuListener
 
actionPerformed(ActionEvent) - Method in class ucl.physiol.neuroconstruct.gui.plotter.PlotterFrame.DataSetSaveInProjMenuListener
 
actionPerformed(ActionEvent) - Method in class ucl.physiol.neuroconstruct.gui.plotter.PlotterFrame.DataSetSimpDerivMenuListener
 
actionPerformed(ActionEvent) - Method in class ucl.physiol.neuroconstruct.gui.plotter.PlotterFrame.DataSetSpikeMenuListener
 
actionPerformed(ActionEvent) - Method in class ucl.physiol.neuroconstruct.gui.plotter.PlotterFrame.DataSetSyncIndexMenuListener
 
actionPerformed(ActionEvent) - Method in class ucl.physiol.neuroconstruct.gui.plotter.PlotterFrame.DataSetTransformListener
 
actionPerformed(ActionEvent) - Method in class ucl.physiol.neuroconstruct.gui.plotter.PlotterFrame.DataSetZerosMenuListener
 
actionPerformed(ActionEvent) - Method in class ucl.physiol.neuroconstruct.gui.RegionColourEditor
 
actionPerformed(ActionEvent) - Method in class ucl.physiol.neuroconstruct.gui.SimulationBrowser.PropertiesMenuListener
 
actionPerformed(ActionEvent) - Method in class ucl.physiol.neuroconstruct.gui.SynapticPropertiesEditor
 
actionPerformed(ActionEvent) - Method in class ucl.physiol.neuroconstruct.hpc.condor.CondorFrame_AboutBox
 
actionPerformed(ActionEvent) - Method in class ucl.physiol.neuroconstruct.hpc.mpi.MpiFrame_AboutBox
 
actionPerformed(ActionEvent) - Method in class ucl.physiol.neuroconstruct.simulation.SimulationTree
 
ACTIV_STATE_VAR_POWER - Static variable in class ucl.physiol.neuroconstruct.mechanisms.TabHHMechanism
Deprecated.  
ActivityMonitor - Class in ucl.physiol.neuroconstruct.gui
Frame for showing activity in cell groups
ActivityMonitor(String, int) - Constructor for class ucl.physiol.neuroconstruct.gui.ActivityMonitor
 
ACX - Static variable in class ucl.physiol.neuroconstruct.mechanisms.TabHHMechanism
Deprecated.  
ACX_DESC - Static variable in class ucl.physiol.neuroconstruct.mechanisms.TabHHMechanism
Deprecated.  
ACY - Static variable in class ucl.physiol.neuroconstruct.mechanisms.TabHHMechanism
Deprecated.  
ACY_DESC - Static variable in class ucl.physiol.neuroconstruct.mechanisms.TabHHMechanism
Deprecated.  
AdapterEditor - Class in ucl.physiol.neuroconstruct.gui
Implementation of AbstractCellEditor for CellPacking adapter column
AdapterEditor(Frame) - Constructor for class ucl.physiol.neuroconstruct.gui.AdapterEditor
 
add(Component) - Method in class ucl.physiol.neuroconstruct.gui.ClickPanel
 
add(SimConfig) - Method in class ucl.physiol.neuroconstruct.project.SimConfigInfo
 
addAdditionalSubOptions(String) - Method in class ucl.physiol.neuroconstruct.hpc.mpi.QueueInfo
 
addAttribute(SimpleXMLAttribute) - Method in class ucl.physiol.neuroconstruct.utils.xml.SimpleXMLElement
 
addAttribute(String, String) - Method in class ucl.physiol.neuroconstruct.utils.xml.SimpleXMLElement
 
addAxes(Graphics, int, int) - Method in class ucl.physiol.neuroconstruct.gui.plotter.PlotCanvas
 
addAxes(TransformGroup, double) - Static method in class ucl.physiol.neuroconstruct.j3D.Utils3D
Adds some handy axes for showing xyz dirs
addAxonalArbour(AxonalConnRegion) - Method in class ucl.physiol.neuroconstruct.cell.Cell
 
addAxonalSegment(float, String, Point3f, Segment, float, String) - Method in class ucl.physiol.neuroconstruct.cell.Cell
 
addBackground(BoundingSphere, BranchGroup, Color) - Static method in class ucl.physiol.neuroconstruct.j3D.Utils3D
Simple coloured background
addBackgroundLights(BoundingSphere, BranchGroup) - Static method in class ucl.physiol.neuroconstruct.j3D.Utils3D
Basic lights
addBoxAtLocation(float, float, float, Vector3f, TransformGroup, Appearance) - Static method in class ucl.physiol.neuroconstruct.j3D.Utils3D
Adds a box to the TG with its corner at the point specified
addBoxAtLocation(float, float, float, Vector3f, TransformGroup, Color) - Static method in class ucl.physiol.neuroconstruct.j3D.Utils3D
Adds a box to the TG with its corner at the point specified
addBreak() - Method in class ucl.physiol.neuroconstruct.utils.SimpleHtmlDoc
 
addButton(String, ActionListener) - Method in class ucl.physiol.neuroconstruct.gui.InformationDialog
 
addButton(String, ActionListener) - Method in class ucl.physiol.neuroconstruct.gui.SimpleViewer
 
addCellGroup(String, String, String, Color, CellPackingAdapter, int) - Method in class ucl.physiol.neuroconstruct.project.CellGroupsInfo
 
addCellGroup(String) - Method in class ucl.physiol.neuroconstruct.project.SimConfig
 
addCellMechanism(CellMechanism) - Method in class ucl.physiol.neuroconstruct.mechanisms.CellMechanismInfo
 
addCellType(Cell) - Method in class ucl.physiol.neuroconstruct.project.CellManager
 
addChildElement(SimpleXMLElement) - Method in class ucl.physiol.neuroconstruct.utils.xml.SimpleXMLElement
 
addComment(StringBuilder, String) - Static method in class ucl.physiol.neuroconstruct.genesis.GenesisFileManager
Adds a line commented out by //, and an empty line after the comment
addComment(StringBuilder, String) - Method in class ucl.physiol.neuroconstruct.neuron.NeuronFileManager
 
addComment(String, String, StringBuilder) - Method in class ucl.physiol.neuroconstruct.project.MultiRunManager
 
addComment(StringBuilder, String, boolean) - Static method in class ucl.physiol.neuroconstruct.utils.python.PythonUtils
 
addComment(SimpleXMLComment) - Method in class ucl.physiol.neuroconstruct.utils.xml.SimpleXMLDocument
 
addComment(SimpleXMLComment) - Method in class ucl.physiol.neuroconstruct.utils.xml.SimpleXMLElement
 
addComment(String) - Method in class ucl.physiol.neuroconstruct.utils.xml.SimpleXMLElement
 
addComments() - Static method in class ucl.physiol.neuroconstruct.neuron.NeuronFileManager
 
addCone(float, Point3f, Point3f, int, int, TransformGroup, Appearance) - Static method in class ucl.physiol.neuroconstruct.j3D.Utils3D
Adds a cone to the TG with ends specified
addConsoleOut(String, String, StringBuilder) - Method in class ucl.physiol.neuroconstruct.project.MultiRunManager
 
addConsoleOut(String, String, String, StringBuilder) - Method in class ucl.physiol.neuroconstruct.project.MultiRunManager
 
addContent(String) - Method in class ucl.physiol.neuroconstruct.utils.xml.SimpleXMLElement
 
addCustomEntriesToTable(UIDefaults) - Method in class ucl.physiol.neuroconstruct.gui.CustomLookAndFeel
 
addCylinder(float, Point3f, Point3f, int, int, TransformGroup, Appearance) - Static method in class ucl.physiol.neuroconstruct.j3D.Utils3D
Adds a cylinder to the TG with one end at the point specified
addCylinderAtLocation(float, float, int, Vector3f, TransformGroup, Color) - Static method in class ucl.physiol.neuroconstruct.j3D.Utils3D
Adds a cylinder to the TG with one end at the point specified
addCylinderAtLocation(float, float, int, int, int, Vector3f, TransformGroup, Color) - Static method in class ucl.physiol.neuroconstruct.j3D.Utils3D
Adds a cylinder to the TG with one end at the point specified
addDataSet(DataSet) - Method in class ucl.physiol.neuroconstruct.gui.plotter.PlotCanvas
 
addDataSet(DataSet) - Method in class ucl.physiol.neuroconstruct.gui.plotter.PlotterFrame
 
addDendriticSegment(float, String, Point3f, Segment, float, String, boolean) - Method in class ucl.physiol.neuroconstruct.cell.Cell
 
addExtraSimProperty(String, String) - Static method in class ucl.physiol.neuroconstruct.simulation.SimulationsInfo
 
addFirstSomaSegment(float, float, String, Point3f, Point3f, Section) - Method in class ucl.physiol.neuroconstruct.cell.Cell
For adding the root segment of the soma.
addHDF5DataSets(File, Component) - Static method in class ucl.physiol.neuroconstruct.gui.plotter.PlotterFrame
 
addHocComment(StringBuilder, String) - Static method in class ucl.physiol.neuroconstruct.neuron.NeuronFileManager
 
addHocComment(StringBuilder, String, boolean) - Static method in class ucl.physiol.neuroconstruct.neuron.NeuronFileManager
 
addHocComment(StringBuilder, String, String, boolean) - Static method in class ucl.physiol.neuroconstruct.neuron.NeuronFileManager
 
addHyperlinkListener(HyperlinkListener) - Method in class ucl.physiol.neuroconstruct.gui.SimpleViewer
 
addInput(String) - Method in class ucl.physiol.neuroconstruct.project.SimConfig
 
additionalSubOptions - Variable in class ucl.physiol.neuroconstruct.hpc.mpi.QueueInfo
 
addLinesAroundRegion(TransformGroup) - Method in class ucl.physiol.neuroconstruct.project.RectangularBox
 
addLinkedText(String, String) - Method in class ucl.physiol.neuroconstruct.utils.SimpleHtmlDoc
 
addMajorComment(StringBuilder, String) - Static method in class ucl.physiol.neuroconstruct.genesis.GenesisFileManager
 
addMajorComment(StringBuilder, String) - Method in class ucl.physiol.neuroconstruct.neuron.NeuronFileManager
 
addMajorComment(StringBuilder, String) - Static method in class ucl.physiol.neuroconstruct.utils.python.PythonUtils
 
addMajorHocComment(StringBuilder, String) - Static method in class ucl.physiol.neuroconstruct.neuron.NeuronFileManager
 
addManualPlot(int, float, float, Frame) - Static method in class ucl.physiol.neuroconstruct.gui.plotter.PlotterFrame
 
addMapping(SegmentRange, SegmentRange[]) - Method in class ucl.physiol.neuroconstruct.cell.compartmentalisation.SegmentLocMapper
 
addMethodDef(String, String, String, String) - Static method in class ucl.physiol.neuroconstruct.utils.python.PythonUtils
 
addNamespace(SimpleXMLNamespace) - Method in class ucl.physiol.neuroconstruct.utils.xml.SimpleXMLElement
 
addNetConn(String) - Method in class ucl.physiol.neuroconstruct.project.SimConfig
 
addNetConn(String, String, String, Vector<SynapticProperties>, SearchPattern, MaxMinLength, ConnectivityConditions, float) - Method in class ucl.physiol.neuroconstruct.project.SimpleNetworkConnectionsInfo
 
addNewDataSet(File, Component) - Static method in class ucl.physiol.neuroconstruct.gui.plotter.PlotterFrame
 
addNewMorphCellType(String) - Static method in class ucl.physiol.neuroconstruct.cell.utils.CellTypeHelper
 
addNewOrdinaryCellType(String, String) - Static method in class ucl.physiol.neuroconstruct.cell.utils.CellTypeHelper
 
addNewParameter(String, String, float, Units) - Method in class ucl.physiol.neuroconstruct.mechanisms.AbstractedCellMechanism
 
addParameterisedGroup(ParameterisedGroup) - Method in class ucl.physiol.neuroconstruct.cell.Cell
 
addParamValueSubstitute(String, float, String) - Method in class ucl.physiol.neuroconstruct.mechanisms.MechanismImplementation
Allows a string to replace the given values of a parameter
addPlot(String) - Method in class ucl.physiol.neuroconstruct.project.SimConfig
 
addPlotSaveDetails(String, SimPlot, ArrayList<Integer>, ArrayList<Integer>, boolean, boolean) - Method in class ucl.physiol.neuroconstruct.project.GeneratedPlotSaves
 
addPoint(double, double) - Method in class ucl.physiol.neuroconstruct.dataset.DataSet
Adds a point and returns the pointNumber
addPosition(String, int, float, float, float) - Method in class ucl.physiol.neuroconstruct.project.GeneratedCellPositions
 
addPosition(String, PositionRecord) - Method in class ucl.physiol.neuroconstruct.project.GeneratedCellPositions
 
addPrimitiveForRegion(TransformGroup, Appearance) - Method in class ucl.physiol.neuroconstruct.project.ConicalRegion
 
addPrimitiveForRegion(TransformGroup, Appearance) - Method in class ucl.physiol.neuroconstruct.project.CylindricalRegion
 
addPrimitiveForRegion(TransformGroup, Appearance) - Method in class ucl.physiol.neuroconstruct.project.RectangularBox
 
addPrimitiveForRegion(TransformGroup, Appearance) - Method in class ucl.physiol.neuroconstruct.project.Region
Generate a shape of the region in 3D and add it to the TransformGroup
addPrimitiveForRegion(TransformGroup, Appearance) - Method in class ucl.physiol.neuroconstruct.project.SphericalRegion
 
addPrintedComment(StringBuilder, String, String, boolean) - Static method in class ucl.physiol.neuroconstruct.utils.python.PythonUtils
 
addProperty(SimpleXMLElement, String, String, String) - Static method in class ucl.physiol.neuroconstruct.neuroml.MetadataConstants
 
addProperty(SimpleXMLElement, String, String, String, NeuroMLConstants.NeuroMLVersion) - Static method in class ucl.physiol.neuroconstruct.neuroml.MetadataConstants
 
addQuickComment(StringBuilder, String) - Static method in class ucl.physiol.neuroconstruct.genesis.GenesisFileManager
Adds a line commented out by //, but with no empty line after the comment
addRawHtml(String) - Method in class ucl.physiol.neuroconstruct.utils.SimpleHtmlDoc
 
addRegionAndCellInfo(Region, Cell) - Method in class ucl.physiol.neuroconstruct.project.packing.CellPackingAdapter
Add Info for region, and cell info
addRootElement(SimpleXMLElement) - Method in class ucl.physiol.neuroconstruct.utils.xml.SimpleXMLDocument
 
addRow(String, String, String, Vector<SynapticProperties>, Vector<String>, ConnectivityConditions, float, String) - Method in class ucl.physiol.neuroconstruct.project.ArbourConnectionsInfo
 
addRow(String, String, String, Color, CellPackingAdapter, int) - Method in class ucl.physiol.neuroconstruct.project.CellGroupsInfo
 
addRow(String, Region, Color) - Method in class ucl.physiol.neuroconstruct.project.RegionsInfo
 
addRow(String, String, String, Vector<SynapticProperties>, SearchPattern, MaxMinLength, ConnectivityConditions, float) - Method in class ucl.physiol.neuroconstruct.project.SimpleNetworkConnectionsInfo
 
addSampleData() - Method in class ucl.physiol.neuroconstruct.gui.plotter.PlotterFrame
 
addShownColumn(String) - Method in class ucl.physiol.neuroconstruct.gui.SimulationBrowser
 
addShownColumn(String) - Method in class ucl.physiol.neuroconstruct.simulation.SimulationsInfo
 
addSimMapping(SimulatorMapping) - Method in class ucl.physiol.neuroconstruct.mechanisms.XMLCellMechanism
 
addSimPlot(SimPlot) - Method in class ucl.physiol.neuroconstruct.project.SimPlotInfo
 
addSingleInput(String, String, String, int, int, float) - Method in class ucl.physiol.neuroconstruct.project.GeneratedElecInputs
 
addSingleInput(String, String, String, int, int, float, InputInstanceProps) - Method in class ucl.physiol.neuroconstruct.project.GeneratedElecInputs
 
addSingleInput(String, SingleElectricalInput) - Method in class ucl.physiol.neuroconstruct.project.GeneratedElecInputs
 
addSomaSegment(float, String, Point3f, Segment, Section) - Method in class ucl.physiol.neuroconstruct.cell.Cell
For adding the second or greater soma section.
addSphereAtLocation(float, Vector3f, TransformGroup, Color) - Static method in class ucl.physiol.neuroconstruct.j3D.Utils3D
Adds a sphere to the TG with its centre at the point specified
addSphereAtLocation(float, Vector3f, TransformGroup, Appearance) - Static method in class ucl.physiol.neuroconstruct.j3D.Utils3D
Adds a sphere to the TG with its centre at the point specified
addStim(StimulationSettings) - Method in class ucl.physiol.neuroconstruct.project.ElecInputInfo
 
addSynapticConnection(String, int, int) - Method in class ucl.physiol.neuroconstruct.project.GeneratedNetworkConnections
todo Add more funcs for python
addSynapticConnection(String, int, int, int, float, int, int, float, float, ArrayList<ConnSpecificProps>) - Method in class ucl.physiol.neuroconstruct.project.GeneratedNetworkConnections
 
addTaggedElement(String, String) - Method in class ucl.physiol.neuroconstruct.utils.SimpleHtmlDoc
 
addTaggedElement(String, String, String) - Method in class ucl.physiol.neuroconstruct.utils.SimpleHtmlDoc
 
addTaggedElement(String, ArrayList<String>) - Method in class ucl.physiol.neuroconstruct.utils.SimpleHtmlDoc
 
addTaggedElement(SimpleHtmlDoc.SimpleHtmlElement, String) - Method in class ucl.physiol.neuroconstruct.utils.SimpleHtmlDoc
 
addToGroup(String) - Method in class ucl.physiol.neuroconstruct.cell.Section
Specifies the section (and so all the segments associated with it) to be in a particular group Note: only one of SOMA_GROUP, DENDRITIC_GROUP, AXONAL_GROUP is allowed in the set of groups
addToHead(String) - Method in class ucl.physiol.neuroconstruct.utils.SimpleHtmlDoc
 
addToList(String) - Method in class ucl.physiol.neuroconstruct.utils.RecentFiles
 
addTreeModelListener(TreeModelListener) - Method in class ucl.physiol.neuroconstruct.simulation.SimulationsInfo
 
addValue(int, String) - Method in class ucl.physiol.neuroconstruct.gui.DropDownCellValuesEditor
 
addValue(Object) - Method in class ucl.physiol.neuroconstruct.gui.DropDownObjectCellEditor
 
ADX - Static variable in class ucl.physiol.neuroconstruct.mechanisms.TabHHMechanism
Deprecated.  
ADX_DESC - Static variable in class ucl.physiol.neuroconstruct.mechanisms.TabHHMechanism
Deprecated.  
ADY - Static variable in class ucl.physiol.neuroconstruct.mechanisms.TabHHMechanism
Deprecated.  
ADY_DESC - Static variable in class ucl.physiol.neuroconstruct.mechanisms.TabHHMechanism
Deprecated.  
AFTER_CELL_CREATION - Static variable in class ucl.physiol.neuroconstruct.genesis.ScriptLocation
 
AFTER_FINAL_RESET - Static variable in class ucl.physiol.neuroconstruct.genesis.ScriptLocation
 
AFTER_INITIAL - Static variable in class ucl.physiol.neuroconstruct.neuron.NativeCodeLocation
 
AFTER_NET_CREATION - Static variable in class ucl.physiol.neuroconstruct.neuron.NativeCodeLocation
 
AFTER_SIMULATION - Static variable in class ucl.physiol.neuroconstruct.genesis.ScriptLocation
 
AFTER_SIMULATION - Static variable in class ucl.physiol.neuroconstruct.neuron.NativeCodeLocation
 
AFX - Static variable in class ucl.physiol.neuroconstruct.mechanisms.TabHHMechanism
Deprecated.  
AFX_DESC - Static variable in class ucl.physiol.neuroconstruct.mechanisms.TabHHMechanism
Deprecated.  
AFY - Static variable in class ucl.physiol.neuroconstruct.mechanisms.TabHHMechanism
Deprecated.  
AFY_DESC - Static variable in class ucl.physiol.neuroconstruct.mechanisms.TabHHMechanism
Deprecated.  
alertChangeToolTipsState() - Method in class ucl.physiol.neuroconstruct.gui.MainFrame
Needed when tool tips state changes in OptionsFrame...
ALL - Static variable in class ucl.physiol.neuroconstruct.cell.Section
 
allBinaryOps - Static variable in class ucl.physiol.neuroconstruct.utils.equation.BinaryOperation
 
AllCells - Class in ucl.physiol.neuroconstruct.project.cellchoice
Extension of CellChooser.
AllCells() - Constructor for class ucl.physiol.neuroconstruct.project.cellchoice.AllCells
 
AllCellsChosenException - Exception in ucl.physiol.neuroconstruct.project.cellchoice
Will be thrown by CellChooser subclass when all cells are chosen
AllCellsChosenException() - Constructor for exception ucl.physiol.neuroconstruct.project.cellchoice.AllCellsChosenException
 
allCellsInGroup - Variable in class ucl.physiol.neuroconstruct.project.GeneratedPlotSaves.PlotSaveDetails
 
allColours - Static variable in class ucl.physiol.neuroconstruct.utils.ColourUtils
 
allFunctions - Static variable in class ucl.physiol.neuroconstruct.utils.equation.BasicFunctions
 
allLocations - Static variable in class ucl.physiol.neuroconstruct.genesis.ScriptLocation
 
allLocations - Static variable in class ucl.physiol.neuroconstruct.neuron.NativeCodeLocation
 
allowedVars - Static variable in class ucl.physiol.neuroconstruct.project.VolumeBasedConnGenerator
 
allowInhomogenousMechanisms - Static variable in class ucl.physiol.neuroconstruct.cell.ParameterisedGroup
 
allROs - Static variable in class ucl.physiol.neuroconstruct.utils.equation.RelationalOperator
 
allSegments - Variable in class ucl.physiol.neuroconstruct.project.GeneratedPlotSaves.PlotSaveDetails
 
AllSegmentsChosenException - Exception in ucl.physiol.neuroconstruct.project.segmentchoice
Will be thrown by SegmentChooser subclass when all cells are chosen
AllSegmentsChosenException() - Constructor for exception ucl.physiol.neuroconstruct.project.segmentchoice.AllSegmentsChosenException
 
ALPHA_ELEMENT - Static variable in class ucl.physiol.neuroconstruct.neuroml.ChannelMLConstants
 
AMPERE - Static variable in class ucl.physiol.neuroconstruct.utils.units.Units
 
angleDetails(double) - Static method in class ucl.physiol.neuroconstruct.j3D.Utils3D
 
ANNOTATION_ELEMENT - Static variable in class ucl.physiol.neuroconstruct.neuroml.MetadataConstants
 
ANY_NETWORK_CONNECTION - Static variable in class ucl.physiol.neuroconstruct.project.GeneratedNetworkConnections
 
appendText(String) - Method in class ucl.physiol.neuroconstruct.utils.xml.SimpleXMLContent
 
applyGroupColouring() - Method in class ucl.physiol.neuroconstruct.j3D.OneCell3D
Applies colouring to the basic view only if there are groups named Colour_Blue.
applyNew3DSettings() - Method in class ucl.physiol.neuroconstruct.gui.MainFrame
 
apPropDelay - Variable in class ucl.physiol.neuroconstruct.project.GeneratedNetworkConnections.SingleSynapticConnection
Note: the delay associated with the Action Potential propagating between rpre & post connection points could in theory be calculated each time from cell positions and morphology, but it's more efficient to cache it here when the connections are generated
ApPropSpeed - Class in ucl.physiol.neuroconstruct.cell
A class representing the propagation velocity of an action potential along a segment.
ApPropSpeed() - Constructor for class ucl.physiol.neuroconstruct.cell.ApPropSpeed
 
ApPropSpeed(float) - Constructor for class ucl.physiol.neuroconstruct.cell.ApPropSpeed
 
arbourConnectionGenerator - Variable in class ucl.physiol.neuroconstruct.project.ProjectManager
 
ArbourConnectionsInfo - Class in ucl.physiol.neuroconstruct.project
Stores info on volume/arbourisation based connections
ArbourConnectionsInfo() - Constructor for class ucl.physiol.neuroconstruct.project.ArbourConnectionsInfo
 
ARCH_64BIT - Static variable in class ucl.physiol.neuroconstruct.utils.GeneralUtils
 
ARCH_I386 - Static variable in class ucl.physiol.neuroconstruct.utils.GeneralUtils
 
ARCH_I686 - Static variable in class ucl.physiol.neuroconstruct.utils.GeneralUtils
 
ARCH_POWERPC - Static variable in class ucl.physiol.neuroconstruct.utils.GeneralUtils
 
ARCH_UMAC - Static variable in class ucl.physiol.neuroconstruct.utils.GeneralUtils
 
areaUnits - Static variable in class ucl.physiol.neuroconstruct.utils.units.UnitConverter
 
areConnected(String, int, int) - Method in class ucl.physiol.neuroconstruct.project.GeneratedNetworkConnections
 
areXvalsStrictlyIncreasing() - Method in class ucl.physiol.neuroconstruct.dataset.DataSet
 
Argument - Class in ucl.physiol.neuroconstruct.utils.equation
Helper class for parsing equations
Argument(String, double) - Constructor for class ucl.physiol.neuroconstruct.utils.equation.Argument
 
Argument() - Constructor for class ucl.physiol.neuroconstruct.utils.equation.Argument
 
arrangeFrames() - Static method in class ucl.physiol.neuroconstruct.gui.plotter.PlotManager
 
associateGroupWithApPropSpeed(String, ApPropSpeed) - Method in class ucl.physiol.neuroconstruct.cell.Cell
 
associateGroupWithChanMech(String, ChannelMechanism) - Method in class ucl.physiol.neuroconstruct.cell.Cell
 
associateGroupWithIonProperties(String, IonProperties) - Method in class ucl.physiol.neuroconstruct.cell.Cell
 
associateGroupWithSpecAxRes(String, float) - Method in class ucl.physiol.neuroconstruct.cell.Cell
 
associateGroupWithSpecCap(String, float) - Method in class ucl.physiol.neuroconstruct.cell.Cell
 
associateGroupWithSynapse(String, String) - Method in class ucl.physiol.neuroconstruct.cell.Cell
 
associateParamGroupWithVarMech(ParameterisedGroup, VariableMechanism) - Method in class ucl.physiol.neuroconstruct.cell.Cell
 
ATTO - Static variable in class ucl.physiol.neuroconstruct.utils.units.Prefix
 
avoidOtherCellGroups() - Method in class ucl.physiol.neuroconstruct.project.packing.CellPackingAdapter
 
avoidOtherCellGroups() - Method in class ucl.physiol.neuroconstruct.project.packing.OneDimRegSpacingPackingAdapter
 
avoidOtherCellGroups() - Method in class ucl.physiol.neuroconstruct.project.packing.RandomCellPackingAdapter
 
avoidOtherCellGroups() - Method in class ucl.physiol.neuroconstruct.project.packing.SinglePositionedCellPackingAdapter
 
AXON_CABLE_GROUP - Static variable in class ucl.physiol.neuroconstruct.neuroml.MorphMLConstants
 
AXONAL_GROUP - Static variable in class ucl.physiol.neuroconstruct.cell.Section
 
AxonalConnRegion - Class in ucl.physiol.neuroconstruct.cell
Region in 3D space around a cell where synaptic connections of certain types can be made, provided there is a dendrite allowing it
AxonalConnRegion() - Constructor for class ucl.physiol.neuroconstruct.cell.AxonalConnRegion
 

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