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

S

S - Class in bactimas.util

S() - Constructor for class bactimas.util.S

SAVE_FILE - Static variable in class signalprocesser.voronoi.VoronoiTest

saveMeasurements(LinkedList<BacteriaMeasurement>) - Static method in class bactimas.datamodel.CurrentExperiment

saveROI(Roi, int, Bacteria, int) - Static method in class bactimas.datamodel.CurrentExperiment

saveTextFile(String, String) - Static method in class bactimas.util.S

SelectedFrameStrip - Class in bactimas.gui

SelectedFrameStrip(ImageStrip) - Constructor for class bactimas.gui.SelectedFrameStrip

setAlgorithm(String) - Method in class bactimas.db.beans.Frame

setBactName(String) - Method in class bactimas.db.beans.Bacteria

setBactName(String) - Method in class bactimas.db.beans.BacteriaMeasurement

setBactName(String) - Method in class bactimas.db.beans.BTreeElement

setBgBlueMean(double) - Method in class bactimas.db.beans.Frame

setBgGreenMean(double) - Method in class bactimas.db.beans.Frame

setBgRedMean(double) - Method in class bactimas.db.beans.Frame

setBlueMovieFileName(String) - Method in class bactimas.db.beans.Experiment

setbName(String) - Method in class bactimas.bintree.BTreeStateChange

setbName(String) - Method in class bactimas.db.beans.BacteriaStateChange

setCalcCutOff(TriangulationRepresentation.CalcCutOff) - Method in class signalprocesser.voronoi.representation.triangulation.TriangulationRepresentation

setCenterY(int) - Method in class signalprocesser.voronoi.eventqueue.VCircleEvent

setChannelName(String) - Method in class bactimas.db.beans.ExperimentMeasurements

setChildAName(String) - Method in class bactimas.db.beans.BacteriaSplit

setChildBName(String) - Method in class bactimas.db.beans.BacteriaSplit

setClassName(String) - Method in class bactimas.datamodel.AlgorithmDesc

setCollapsed(boolean) - Method in class signalprocesser.shared.JCollapsiblePanel

setCollarSize(int) - Method in class bactimas.db.beans.ExperimentMeasurements

setColumnMapping(String...) - Method in class au.com.bytecode.opencsv.bean.ColumnPositionMappingStrategy

setColumnMapping(Map<String, String>) - Method in class au.com.bytecode.opencsv.bean.HeaderColumnNameTranslateMappingStrategy

setDateCreated(long) - Method in class bactimas.db.beans.Experiment

setDefaultFileName(String, String) - Method in class bactimas.bintree.Main

setDepthForRootNode() - Method in class signalprocesser.voronoi.statusstructure.binarysearchtreeimpl.VInternalNode

setDetermineClustersMode() - Method in class signalprocesser.voronoi.representation.triangulation.TriangulationRepresentation

setDetermineMinSpanningTreeMode() - Method in class signalprocesser.voronoi.representation.triangulation.TriangulationRepresentation

setEvent(ExperimentEvent) - Method in class bactimas.gui.frametree.FrameNode

setEventAbbr(String) - Method in class bactimas.bintree.BTreeEvent

setEventAbbr(String) - Method in class bactimas.db.beans.ExperimentEvent

setEventDesc(String) - Method in class bactimas.db.beans.ExperimentEvent

setExperimentEvent(int, String, String) - Static method in class bactimas.datamodel.CurrentExperiment

setExperimentEvent(int, int, String, String) - Static method in class bactimas.db.DALService

setExperimentName(String) - Method in class bactimas.db.beans.Experiment

setfield(Object, String, Object, String) - Static method in class signalprocesser.shared.Reflect

setfield(Object, String, Object) - Static method in class signalprocesser.shared.Reflect

setFrameBlueFileName(String) - Method in class bactimas.db.beans.Frame

setFrameGreenFileName(String) - Method in class bactimas.db.beans.Frame

setFrameNo(int) - Method in class bactimas.bintree.BTreeEvent

setFrameNo(int) - Method in class bactimas.bintree.BTreeStateChange

setFrameNo(int) - Method in class bactimas.db.beans.BacteriaMeasurement

setFrameNo(int) - Method in class bactimas.db.beans.BacteriaSplit

setFrameNo(int) - Method in class bactimas.db.beans.BacteriaStateChange

setFrameNo(int) - Method in class bactimas.db.beans.BTreeElement

setFrameNo(int) - Method in class bactimas.db.beans.ExperimentEvent

setFrameNo(int) - Method in class bactimas.db.beans.Frame

setFrameNo(int) - Method in class bactimas.db.beans.Roi

setFrameRedFileName(String) - Method in class bactimas.db.beans.Frame

setGetStatsExcludingMSTStatsMode() - Method in class signalprocesser.voronoi.representation.triangulation.TriangulationRepresentation

setGetStatsMode() - Method in class signalprocesser.voronoi.representation.triangulation.TriangulationRepresentation

setGreenMovieFileName(String) - Method in class bactimas.db.beans.Experiment

setGroup(int) - Method in class bactimas.db.ExpMeasurement

setHeading(int, String, boolean) - Method in class signalprocesser.voronoi.tools.TestSuite.ValueCollector

setHumanROI(Roi) - Method in class bactimas.gui.frametree.BacteriaNode

setIdBacteria(int) - Method in class bactimas.db.beans.Bacteria

setIdBacteria(int) - Method in class bactimas.db.beans.BacteriaMeasurement

setIdBacteria(int) - Method in class bactimas.db.beans.BacteriaStateChange

setIdBacteria(int) - Method in class bactimas.db.beans.Roi

setIdBacteriaChildA(int) - Method in class bactimas.db.beans.BacteriaSplit

setIdBacteriaChildB(int) - Method in class bactimas.db.beans.BacteriaSplit

setIdBacteriaParent(int) - Method in class bactimas.db.beans.BacteriaSplit

setIdChannel(int) - Method in class bactimas.db.beans.BacteriaMeasurement

setIdChannel(int) - Method in class bactimas.db.beans.ExperimentMeasurements

setIdExperiment(int) - Method in class bactimas.db.beans.Bacteria

setIdExperiment(int) - Method in class bactimas.db.beans.BTreeElement

setIdExperiment(int) - Method in class bactimas.db.beans.Experiment

setIdExperiment(int) - Method in class bactimas.db.beans.ExperimentEvent

setIdExperiment(int) - Method in class bactimas.db.beans.ExperimentMeasurements

setIdExperiment(int) - Method in class bactimas.db.beans.Frame

setIdFrame(int) - Method in class bactimas.db.beans.Frame

setIdMeasurement(int) - Method in class bactimas.db.beans.BacteriaMeasurement

setIdMeasurement(int) - Method in class bactimas.db.beans.ExperimentMeasurements

setIdRoiType(int) - Method in class bactimas.db.beans.BacteriaMeasurement

setIdRoiType(int) - Method in class bactimas.db.beans.Roi

setIdState(int) - Method in class bactimas.db.beans.BacteriaState

setIdState(int) - Method in class bactimas.db.beans.BacteriaStateChange

setIgnoreFrame(String) - Method in class bactimas.db.beans.Frame

setinteger(Object, String, Object) - Static method in class signalprocesser.shared.Reflect

setIntegerLengthCutoff(int) - Method in class signalprocesser.voronoi.representation.triangulation.TriangulationRepresentation

setIntensity(String, int, double) - Method in class bactimas.bintree.Node

setKey(String) - Method in class bactimas.gui.frametree.BacteriaKeyValue

setLayout(LayoutManager) - Method in class signalprocesser.shared.JCollapsiblePanel

setLeft(VNode) - Method in class signalprocesser.voronoi.statusstructure.binarysearchtreeimpl.VInternalNode

setMeasurementName(String) - Method in class bactimas.db.beans.BacteriaMeasurement

setMeasurementName(String) - Method in class bactimas.db.beans.ExperimentMeasurements

setMovieSpf(int) - Method in class bactimas.db.beans.Experiment

setName(String) - Method in class bactimas.datamodel.AlgorithmDesc

setName(String) - Method in class bactimas.db.ExpMeasurement

setNext(VHalfEdge) - Method in class signalprocesser.voronoi.representation.boundaryproblem.voronoicell.VHalfEdge

setNext(VHalfEdge) - Method in class signalprocesser.voronoi.representation.voronoicell.VHalfEdge

setNext(VLinkedNode) - Method in class signalprocesser.voronoi.statusstructure.VLinkedNode

setOnColor(float) - Method in class bactimas.db.beans.BTreeElement

setOnWidth(float) - Method in class bactimas.db.beans.BTreeElement

setParent(VInternalNode) - Method in class signalprocesser.voronoi.statusstructure.binarysearchtreeimpl.VInternalNode

setParent(VInternalNode) - Method in class signalprocesser.voronoi.statusstructure.binarysearchtreeimpl.VLeafNode

setParent(VInternalNode) - Method in interface signalprocesser.voronoi.statusstructure.binarysearchtreeimpl.VNode

setParentName(String) - Method in class bactimas.db.beans.BacteriaSplit

setPictureScale(BigDecimal) - Method in class bactimas.db.beans.Experiment

setPixelHeightMicron(BigDecimal) - Method in class bactimas.db.beans.Experiment

setPixelWidthMicron(BigDecimal) - Method in class bactimas.db.beans.Experiment

setPlottable(boolean) - Method in class bactimas.db.ExpMeasurement

setRedMovieFileName(String) - Method in class bactimas.db.beans.Experiment

setReduceOuterBoundariesMode() - Method in class signalprocesser.voronoi.representation.triangulation.TriangulationRepresentation

setResultService(ResultSetHelper) - Method in class au.com.bytecode.opencsv.CSVWriter

setRight(VNode) - Method in class signalprocesser.voronoi.statusstructure.binarysearchtreeimpl.VInternalNode

setRoiBlob(byte[]) - Method in class bactimas.db.beans.Roi

setRoiName(String) - Method in class bactimas.db.beans.Roi

setRootNode(VSiteEvent) - Method in class signalprocesser.voronoi.statusstructure.AbstractStatusStructure

setRootNode(VSiteEvent) - Method in class signalprocesser.voronoi.statusstructure.binarysearchtreeimpl.BSTStatusStructure

setRootNode(VNode, int) - Method in class signalprocesser.voronoi.statusstructure.binarysearchtreeimpl.debug.DebugTree

setRootNode(VSiteEvent) - Method in class signalprocesser.voronoi.statusstructure.doublelinkedlistimpl.DLinkedListStatusStructure

setSelectedItem(Object) - Method in class signalprocesser.voronoi.tools.CountryListModel

setSiteEvents(VSiteEvent, VSiteEvent) - Method in class signalprocesser.voronoi.statusstructure.binarysearchtreeimpl.VInternalNode

setSize(String, int, double) - Method in class bactimas.bintree.Node

setSql(String) - Method in class bactimas.db.ExpMeasurement

setState(String) - Method in class bactimas.gui.frametree.BacteriaNode

setStateChange(int, int, int) - Static method in class bactimas.datamodel.CurrentExperiment

setStateChange(int, int, int) - Static method in class bactimas.db.DALService

setStateName(String) - Method in class bactimas.db.beans.BacteriaState

setStateName(String) - Method in class bactimas.db.beans.BacteriaStateChange

setStateTag(String) - Method in class bactimas.bintree.BTreeStateChange

setStateTag(String) - Method in class bactimas.db.beans.BacteriaState

setStateTag(String) - Method in class bactimas.db.beans.BacteriaStateChange

setTransX(int) - Method in class bactimas.db.beans.Frame

setTransY(int) - Method in class bactimas.db.beans.Frame

setType(Class<T>) - Method in class au.com.bytecode.opencsv.bean.HeaderColumnNameMappingStrategy

setValue(double) - Method in class bactimas.db.beans.BacteriaMeasurement

setValue(double) - Method in class bactimas.gui.frametree.BacteriaKeyValue

setX(int) - Method in class signalprocesser.voronoi.eventqueue.VCircleEvent

setXY(int, int) - Method in class signalprocesser.voronoi.representation.boundaryproblem.voronoicell.VHalfEdge

setXY(int, int) - Method in class signalprocesser.voronoi.representation.voronoicell.VHalfEdge

setY(int) - Method in class signalprocesser.voronoi.eventqueue.VCircleEvent

ShapeGeneration - Class in signalprocesser.voronoi.shapegeneration

ShapeGeneration() - Constructor for class signalprocesser.voronoi.shapegeneration.ShapeGeneration

ShapeGenerationException - Exception in signalprocesser.voronoi.shapegeneration

ShapeGenerationException(String) - Constructor for exception signalprocesser.voronoi.shapegeneration.ShapeGenerationException

SHAPEMARGIN_LEFTRIGHT - Static variable in class signalprocesser.voronoi.VoronoiTest

SHAPEMARGIN_TOPBOTTOM - Static variable in class signalprocesser.voronoi.VoronoiTest

SharedEdgeRemoval - Class in signalprocesser.voronoi.representation.triangulation

SharedEdgeRemoval() - Constructor for class signalprocesser.voronoi.representation.triangulation.SharedEdgeRemoval

SharedMinimumSpanningTree - Class in signalprocesser.voronoi.representation.triangulation

SharedMinimumSpanningTree() - Constructor for class signalprocesser.voronoi.representation.triangulation.SharedMinimumSpanningTree

SHOW_DEBUG_INFO - Static variable in class signalprocesser.voronoi.representation.triangulation.TriangulationRepresentation

SHOW_EDGE_LENGTHS - Static variable in class signalprocesser.voronoi.representation.triangulation.TriangulationRepresentation

SHOW_INTERNAL_TRIANGLES - Static variable in class signalprocesser.voronoi.representation.triangulation.TriangulationRepresentation

showAll() - Static method in class ij.plugin.frame.BridgeToRoiManager

showDialog() - Method in class bactimas.gui.ExperimentDialog

shownonminimumspanningtree - Variable in class signalprocesser.voronoi.representation.triangulation.VHalfEdge

signalprocesser.shared - package signalprocesser.shared

signalprocesser.voronoi - package signalprocesser.voronoi

signalprocesser.voronoi.eventqueue - package signalprocesser.voronoi.eventqueue

signalprocesser.voronoi.representation - package signalprocesser.voronoi.representation

signalprocesser.voronoi.representation.boundaryproblem - package signalprocesser.voronoi.representation.boundaryproblem

signalprocesser.voronoi.representation.boundaryproblem.voronoicell - package signalprocesser.voronoi.representation.boundaryproblem.voronoicell

signalprocesser.voronoi.representation.simpletriangulation - package signalprocesser.voronoi.representation.simpletriangulation

signalprocesser.voronoi.representation.triangulation - package signalprocesser.voronoi.representation.triangulation

signalprocesser.voronoi.representation.voronoicell - package signalprocesser.voronoi.representation.voronoicell

signalprocesser.voronoi.shapegeneration - package signalprocesser.voronoi.shapegeneration

signalprocesser.voronoi.statusstructure - package signalprocesser.voronoi.statusstructure

signalprocesser.voronoi.statusstructure.binarysearchtreeimpl - package signalprocesser.voronoi.statusstructure.binarysearchtreeimpl

signalprocesser.voronoi.statusstructure.binarysearchtreeimpl.debug - package signalprocesser.voronoi.statusstructure.binarysearchtreeimpl.debug

signalprocesser.voronoi.statusstructure.doublelinkedlistimpl - package signalprocesser.voronoi.statusstructure.doublelinkedlistimpl

signalprocesser.voronoi.tools - package signalprocesser.voronoi.tools

SimpleTriangulationRepresentation - Class in signalprocesser.voronoi.representation.simpletriangulation

SimpleTriangulationRepresentation() - Constructor for class signalprocesser.voronoi.representation.simpletriangulation.SimpleTriangulationRepresentation

siteEvent(VLinkedNode, VLinkedNode, VLinkedNode) - Method in class signalprocesser.voronoi.representation.boundaryproblem.BoundaryProblemRepresentation

siteEvent(VLinkedNode, VLinkedNode, VLinkedNode) - Method in class signalprocesser.voronoi.representation.boundaryproblem.voronoicell.VoronoiCellRepresentation

siteEvent(VLinkedNode, VLinkedNode, VLinkedNode) - Method in interface signalprocesser.voronoi.representation.RepresentationInterface

siteEvent(VLinkedNode, VLinkedNode, VLinkedNode) - Method in class signalprocesser.voronoi.representation.simpletriangulation.SimpleTriangulationRepresentation

siteEvent(VLinkedNode, VLinkedNode, VLinkedNode) - Method in class signalprocesser.voronoi.representation.triangulation.TriangulationRepresentation

siteEvent(VLinkedNode, VLinkedNode, VLinkedNode) - Method in class signalprocesser.voronoi.representation.voronoicell.VoronoiCellRepresentation

siteevent - Variable in class signalprocesser.voronoi.statusstructure.VLinkedNode

siteEvent(VLinkedNode, VLinkedNode, VLinkedNode) - Method in class signalprocesser.voronoi.VoronoiTest.TestRepresentationWrapper

skeletonize(Roi) - Static method in class bactimas.alg.MovieProcessor

Implementation of Zhang and Suen thinning algorithm, described here: T.

skeletonize(ByteProcessor) - Static method in class bactimas.alg.MovieProcessor

Implementation of Zhang and Suen thinning algorithm, described here: T.

solveQuadratic(double, double, double) - Static method in class signalprocesser.voronoi.VoronoiShared

splitBacteria(Bacteria, int) - Static method in class bactimas.db.DALService

SQLQueryPane - Class in bactimas.gui.sql

SQLQueryPane() - Constructor for class bactimas.gui.sql.SQLQueryPane

StackTraceUtil - Class in bactimas.util

StackTraceUtil() - Constructor for class bactimas.util.StackTraceUtil

start(Window, String, String, Thread) - Static method in class signalprocesser.shared.StatusDialog

StatusDialog - Class in signalprocesser.shared

StatusDialog(Frame, String, String) - Constructor for class signalprocesser.shared.StatusDialog

StatusDialog(Dialog, String, String) - Constructor for class signalprocesser.shared.StatusDialog

StelsRepository - Class in bactimas.alg

StelsRepository() - Constructor for class bactimas.alg.StelsRepository

step(int, VPoint) - Method in interface bactimas.alg.ITrackingAlgorithm

This is the main function to implement - the one that performs the tracking / segmentation.

step(int, VPoint) - Method in class bactimas.algorithms.CopyAndAdjustAlgorithm

step(int, VPoint) - Method in class bactimas.algorithms.CopyAndAdjustNoLogAlgorithm

step(int, VPoint) - Method in class bactimas.algorithms.FastCopyAndAdjustAlgorithm

strDoublyLinkedList(int) - Method in class signalprocesser.voronoi.statusstructure.binarysearchtreeimpl.BSTStatusStructure

sum - Variable in class bactimas.alg.PointSum

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