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