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

a1Sum - Variable in class JavaGrinders.NumberDescriptives
 
a2Sum - Variable in class JavaGrinders.NumberDescriptives
 
a3Sum - Variable in class JavaGrinders.NumberDescriptives
 
a4Sum - Variable in class JavaGrinders.NumberDescriptives
 
absolute() - Method in class JavaGrinders.NumberVariable
set the value to its absolute value
actionPerformed(ActionEvent) - Method in class JavaGrinders.Presenter
ActionListener interface (for menus)
actionPerformed(ActionEvent) - Method in class JavaGrinders.StatTablePresenter
ActionListener interface (for menus)
addAnalysisMenuItems() - Method in class JavaGrinders.StatTablePresenter
create and add an Analysis menus to the JFrame
addContentPict(Pict) - Method in class JavaGrinders.PicturePresenter
adds a Pict to the current contentPict - this is not working right
addDeviceController(DeviceController, int) - Method in class JavaGrinders.PeripheralsControl.DeviceInterface
adds a controller for a serial device
addEditMenuItems() - Method in class JavaGrinders.Presenter
 
addFileMenuItems() - Method in class JavaGrinders.Presenter
 
addMenus() - Method in class JavaGrinders.Presenter
adds menus to the JFrame
addMenus() - Method in class JavaGrinders.SGTracker.SGTracker
sets up menues for the tracking application
addMenus() - Method in class JavaGrinders.StatTablePresenter
adds menus to the JFrame
addMove(MoveVector) - Method in class JavaGrinders.spatial.CaptureVariable
makes the animal move from the last recorded position
addPixel(int, Pixel) - Method in class JavaGrinders.SGTracker.SGTracker
add a pixel to the Vector
addSelectRows(Variable, Object) - Method in class JavaGrinders.VariableOrganizer
adds rows that match a given object to the currently selected set of rows
addValue(Object) - Method in class JavaGrinders.Variable
appends an Object to the end of the Variable
allData - Variable in class JavaGrinders.Variable
 
aMap - Variable in class JavaGrinders.SGTracker.SGRecordProc
 
ANALYSIS - Static variable in class JavaGrinders.SGTracker.SGTracker
 
analysisButton - Variable in class JavaGrinders.SGTracker.SGTracker
 
analysisMenu - Variable in class JavaGrinders.SGTracker.SGTracker
 
AnalysisProc - Class in JavaGrinders.spatial
the main class controlling the invocation of analyses in the model
AnalysisProc() - Constructor for class JavaGrinders.spatial.AnalysisProc
 
analysisRunning - Variable in class JavaGrinders.SGTracker.SGTracker
 
analysisStart - Variable in class JavaGrinders.SGTracker.SGTracker
 
analyze(int, int) - Method in class JavaGrinders.spatial.AnalysisProc
performs the basic time management needed for SGRecordProcs, call this method from your subclass to see whether your function should record or not
analyze2Groups(Variable, Variable) - Method in class JavaGrinders.spatial.CircularAnalyzer
lists the results from an analysis of differences in mean direction
analyze_nY() - Method in class JavaGrinders.ContingencyAnalyzer
performs an analysis of multiple dependent variables
analyze_nY() - Method in class JavaGrinders.ReplicatedGAnalyzer
peforms an analysis of multiple dependent variables
analyzeMultXY() - Method in class JavaGrinders.Analyzer
coordinates analyses for multiple dependent on multiple independent variables
analyzeMultY() - Method in class JavaGrinders.Analyzer
coordinates analyses for multiple dependent on multiple independent variables
analyzeNGroups(Variable, Variable) - Method in class JavaGrinders.spatial.CircularAnalyzer
lists the results from an analysis of differences in mean direction
Analyzer - Class in JavaGrinders
Analyzer class - sets up a generic data analyzer, it does not do much aside from planting the general roots for analyzers
Analyzer(VariableOrganizer) - Constructor for class JavaGrinders.Analyzer
Standard constructor using a VariableOrganizer
analyzeXY() - Method in class JavaGrinders.Analyzer
coordinates univariate analyses for dependent on independent variables
analyzeY() - Method in class JavaGrinders.Analyzer
describes one or multiple Y columns
analyzeY(Double) - Method in class JavaGrinders.Analyzer
describes one or multiple Y columns
AngleConfInt95 - Variable in class JavaGrinders.spatial.CircularDescriptives
 
AngleConfInt99 - Variable in class JavaGrinders.spatial.CircularDescriptives
 
ANGLES - Static variable in class JavaGrinders.VariableType
 
AngleSDRad - Variable in class JavaGrinders.spatial.CircularDescriptives
 
AngleVariable - Class in JavaGrinders.spatial
handles things that a general variable containing angles should do or know about.
AngleVariable(String, VariableOrganizer) - Constructor for class JavaGrinders.spatial.AngleVariable
Standard constructor for the root number Variable class using a VariableOrganizer
AngleVarRad - Variable in class JavaGrinders.spatial.CircularDescriptives
 
Animal - Class in JavaGrinders.spatial
characterizes an animal as a spatially explicit entity.
Animal() - Constructor for class JavaGrinders.spatial.Animal
Empty constructor for the Animal class
Animal(String) - Constructor for class JavaGrinders.spatial.Animal
Constructor for the Animal class
Animal(String, Group) - Constructor for class JavaGrinders.spatial.Animal
Standard constructor for the Animal class
ANOVAResults - Class in JavaGrinders.parametric
provides the interface for obtaining statistics for a 1-way ANOVA
ANOVAResults(int) - Constructor for class JavaGrinders.parametric.ANOVAResults
empty constructor
append(Object[]) - Method in class JavaGrinders.Variable
appends the variable to the end of the variable
appendEventItem(Object) - Method in class JavaGrinders.PeripheralsControl.Coordinator
Add an event item into the event item queue
appendString(String) - Method in class JavaGrinders.Applets.Cell
appends a given String to the pre-existing text for the cell
appendVariable(Variable) - Method in class JavaGrinders.Variable
appends the variable to the end of the variable
applyMove(MoveVector) - Method in class JavaGrinders.spatial.Capture
Returns the coordinates of this Capture after a Move has been applied to it
applyRandomMoveFromDistribution(Capture) - Method in class JavaGrinders.spatial.CaptureVariable
generates a single move from a Distribution of Moves
applyVector(SpatialVector) - Method in class JavaGrinders.spatial.SpatialVector
Returns the coordinates of the Location after a Move has been applied to it
applyVector(PolarVector) - Method in class JavaGrinders.spatial.SpatialVector
Returns the coordinates of the Location after a Move has been applied to it
aPt - Variable in class JavaGrinders.SGTracker.SGRecordProc
 
aPx - Variable in class JavaGrinders.SGTracker.SGRecordProc
 
Arena - Class in JavaGrinders.spatial
implements an spatially explicit stage for the modelling
Arena(double, double, double, double, double, double) - Constructor for class JavaGrinders.spatial.Arena
Constructor with the low and high borders for x, y and z provided
Arena(double, double, double, double) - Constructor for class JavaGrinders.spatial.Arena
Constructor with the low and high borders for x, y and z provided
arrayLeftDivide(Matrix) - Method in class JavaGrinders.Jama.Matrix
Element-by-element left division, C = A.\B
arrayLeftDivideEquals(Matrix) - Method in class JavaGrinders.Jama.Matrix
Element-by-element left division in place, A = A.\B
arrayRightDivide(Matrix) - Method in class JavaGrinders.Jama.Matrix
Element-by-element right division, C = A./B
arrayRightDivideEquals(Matrix) - Method in class JavaGrinders.Jama.Matrix
Element-by-element right division in place, A = A./B
arrayTimes(Matrix) - Method in class JavaGrinders.Jama.Matrix
Element-by-element multiplication, C = A.*B
arrayTimesEquals(Matrix) - Method in class JavaGrinders.Jama.Matrix
Element-by-element multiplication in place, A = A.*B
as2DdoubleArray() - Method in class JavaGrinders.ContingencyTable
returns the private array of data values for the ContingencyTable
as2DStringArray() - Method in class JavaGrinders.ContingencyTable
returns the private array of data values for the ContingencyTable
asbyteArray(Rectangle) - Method in class JavaGrinders.SGTracker.ImagePixels
Returns the ImagePixels as a 1D byte Array
asCircularGraph() - Method in class JavaGrinders.spatial.AngleVariable
Creates a presenter and plots the movement vectors as a circular graph
asCircularGraph() - Method in class JavaGrinders.spatial.CaptureVariable
Creates a circular presenter
asCircularGraph(boolean) - Method in class JavaGrinders.spatial.CaptureVariable
Creates a circular presenter
asCircularGraph() - Method in class JavaGrinders.spatial.MoveVariable
Creates a presenter and plots the movement vectors as a circular graph
asConcatStrVariable() - Method in class JavaGrinders.VariableOrganizer
returns a new VariableOrganizer containing all variables which have been selected as independent variables (i.e., VariableDesignRole.X) and all selected rows
asDataTable() - Method in class JavaGrinders.VariableOrganizer
returns a DataTable of doubles for variables in the variableorganizer which have been selected as dependent variables (i.e., VariableDesignRole.Y)
asDoubleArray() - Method in class JavaGrinders.VariableOrganizer
returns a 2D array of doubles for the variables in the variableorganizer which have been selected as dependent variables (i.e., VariableDesignRole.Y) and which are ordinal or nominal
asEncodedImage(Rectangle) - Method in class JavaGrinders.SGTracker.ImagePixels
Returns the ImagePixels within a given Rectangle as a RawEncodedImage
asJAMAMatrix() - Method in class JavaGrinders.ContingencyTable
returns the private array of data values for the ContingencyTable
asJAMAMatrix() - Method in class JavaGrinders.Variable
returns a matrix for the variables in the variableorganizer which have been selected as dependent variables (i.e., VariableDesignRole.Y) and which are ordinal or nominal
asJAMAMatrix() - Method in class JavaGrinders.VariableOrganizer
returns a matrix for the variables in the variableorganizer which have been selected as dependent variables (i.e., VariableDesignRole.Y) and which are ordinal or nominal
askForVideoSettings - Variable in class JavaGrinders.SGTracker.SGTracker
 
asPoint() - Method in class JavaGrinders.SGTracker.Pixel
returns the info for the pixel as a String
asProximity() - Method in class JavaGrinders.VariableOrganizer
returns a proximity matrix for the variables in the variableorganizer which have been selected as dependent variables (i.e., VariableDesignRole.Y)
assertTable() - Method in class JavaGrinders.ContingencyAnalyzer
checks for a crosstabulation (i.e., frequency) ContingencyTable.
asSpatialMap() - Method in class JavaGrinders.spatial.CaptureVariable
Creates a presenter and plots and connects the locations
asSpatialMap(boolean, boolean) - Method in class JavaGrinders.spatial.CaptureVariable
Creates a presenter and plots the locations
asSpatialMap(boolean, boolean, int) - Method in class JavaGrinders.spatial.CaptureVariable
Creates a presenter and plots the locations
asSpatialMap() - Method in class JavaGrinders.spatial.Group
Creates a presenter and plots and connects the locations
asSpatialMap(boolean, boolean) - Method in class JavaGrinders.spatial.Group
Creates a presenter and plots the locations
asSpatialMap() - Method in class JavaGrinders.spatial.MoveVariable
Creates a presenter and plots the locations
asSpatialMap(boolean, boolean) - Method in class JavaGrinders.spatial.MoveVariable
Creates a presenter and plots the locations
asSpatialSpeedMap() - Method in class JavaGrinders.spatial.CaptureVariable
Creates a presenter and plots and connects the locations
asSpatialSpeedMap(boolean, boolean) - Method in class JavaGrinders.spatial.CaptureVariable
Creates a presenter and plots the locations
asStringArray() - Method in class JavaGrinders.VariableOrganizer
returns a 2D array of doubles for the variables in the variableorganizer which have been selected as dependent variables (i.e., VariableDesignRole.Y)
asTablePresenter() - Method in class JavaGrinders.VariableOrganizer
Creates a presenter from a variableorganizer for all the variables the organizer knows about
asVariableOrganizer() - Method in class JavaGrinders.Variable
returns the variable as a variable organizer filled with this variable
asVariableOrganizerX() - Method in class JavaGrinders.VariableOrganizer
returns a new VariableOrganizer containing all variables which have been selected as independent variables (i.e., VariableDesignRole.X) and all selected rows
asVariableOrganizerY() - Method in class JavaGrinders.VariableOrganizer
returns a new VariableOrganizer containing all variables which have been selected as dependent variables (i.e., VariableDesignRole.Y) and all selected rows
attached - Variable in class JavaGrinders.PeripheralsControl.DeviceInterface
 
autoExtracted - Variable in class JavaGrinders.Variable
 
autoNUnits() - Method in class JavaGrinders.Grid
automatically finds and sets the number of units in the space

B

BACK - Static variable in class JavaGrinders.spatial.View
 
BasicCalculations() - Method in class JavaGrinders.parametric.ANOVAResults
fill all the remaining terms once the sums are filled
BasicCalculations() - Method in class JavaGrinders.parametric.CorrelationResults
fill terms once the sums are filled
BasicCalculations() - Method in class JavaGrinders.parametric.RegressionResults
fill terms once the sums are filled
BAUD - Static variable in class JavaGrinders.PeripheralsControl.LabProSerialPort
 
BAUD - Static variable in class JavaGrinders.PeripheralsControl.LabProSerialPortTester
 
betainv(double, double, double) - Static method in class JavaGrinders.Utilities.RHUtilities
returns the inverse beta, ALGORITHM AS 63 APPL.
betweenAngle(double, double) - Method in class JavaGrinders.spatial.AngleVariable
find the angle that is halfway between the two angles in a clockwise direction
biggerSpace - Variable in class JavaGrinders.spatial.SpatialMapPresenter
 
binomialCoeff(int, int) - Static method in class JavaGrinders.Utilities.RHUtilities
returns the binomial coefficient which reports the number of ways n items can be sampled from among a larger group without replacement and where the order is not important (i.e., dog = god)
binomialStandardError(double, int) - Static method in class JavaGrinders.Utilities.RHUtilities
Computes standard error for observed values of a binomial random variable.
BooleanVariable - Class in JavaGrinders
handles a variable of Booleans
BooleanVariable(String, VariableOrganizer) - Constructor for class JavaGrinders.BooleanVariable
Standard constructor for the BooleanVariable class using a VariableOrganizer
BOTTOM - Static variable in class JavaGrinders.SGTracker.TrackingJobSetting
 
byteToHex(byte) - Static method in class JavaGrinders.Utilities.RHUtilities
returns the value of an unsigned byte as a hexadecimal string

C

calcContingencyResults(ContingencyTable) - Method in class JavaGrinders.ContingencyTable
calculates the test of independence and returns ChiSquare and GValue
calcGoodnessOfFitResults() - Method in class JavaGrinders.ContingencyTable
calculates the test of independence and returns ChiSquare and GValue
Capture - Class in JavaGrinders.spatial
characterizes a single Capture with a capture location (as x, y, z coordinates) and a time stamp for the time of capture
Capture(double, double, double, Date) - Constructor for class JavaGrinders.spatial.Capture
standard constructor for the 3D Capture class with coordinates and time provided
Capture() - Constructor for class JavaGrinders.spatial.Capture
empty constructor for the Capture class
Capture(double, double, double) - Constructor for class JavaGrinders.spatial.Capture
constructor for the Capture class with coordinates provided
Capture(SpatialVector) - Constructor for class JavaGrinders.spatial.Capture
constructor for the Capture class with coordinates provided as a SpatialVector
Capture(SpatialVector, Date) - Constructor for class JavaGrinders.spatial.Capture
constructor for the Capture class with coordinates and time provided
CaptureVariable - Class in JavaGrinders.spatial
handles a variable of Captures (capture localities and time of capture).
CaptureVariable(String, VariableOrganizer) - Constructor for class JavaGrinders.spatial.CaptureVariable
Standard constructor for the CaptureVariable class using a VariableOrganizer
Cell - Class in JavaGrinders.Applets
manages individual cells of a table, with dimensions and Capture, alignment and size of text, and colors.
Cell(FrequencyMatrixApplet, Color, Color, boolean, int, int, int, int, int) - Constructor for class JavaGrinders.Applets.Cell
standard constructor to initialize the cell with a set of values
Cell3D - Class in JavaGrinders.Applets
extends cells with a 3D-like appearance
Cell3D(FrequencyMatrixApplet, Color, Color, boolean, int, int, int, int, int) - Constructor for class JavaGrinders.Applets.Cell3D
standard constructor to initialize the cell with a set of values
CellAlignment - Variable in class JavaGrinders.Applets.Cell
 
CellMatrix - Class in JavaGrinders.Applets
coordinates a set of visual cells with data contained in a ContingencyTable
CellMatrix(int, int, boolean) - Constructor for class JavaGrinders.Applets.CellMatrix
standard constructor for the CellMatrix class
CellType - Variable in class JavaGrinders.Applets.Cell
 
CENTER - Static variable in class JavaGrinders.Applets.Cell
 
centerLocation - Variable in class JavaGrinders.spatial.SpatialDescriptives
 
CharVariable - Class in JavaGrinders
handles a variable of single characters.
CharVariable(String, VariableOrganizer) - Constructor for class JavaGrinders.CharVariable
Standard constructor for the character variable class using a VariableOrganizer
checkConnectedCoords() - Method in class JavaGrinders.spatial.CaptureVariable
assures that coordinates are connected
checkForColumnPs() - Method in class JavaGrinders.ContingencyTable
checks whether column probabiities have been set
checkMatchingMatrixDimensions(ContingencyTable) - Method in class JavaGrinders.ContingencyTable
examine whether this matrix has the same dimensions as the one provided?
checkMatchingRows(ContingencyTable) - Method in class JavaGrinders.Variable
examine whether this variables has the same number of rows as the provided ContingencyTable
checkMatrix() - Method in class JavaGrinders.ContingencyTable
examines the matrix for invalid entries
checkMatrix() - Method in class JavaGrinders.DataTable
examines the matrix for invalid entries, all values may occur, so no flag is thrown
checkMatrixParamters(int, boolean) - Method in class JavaGrinders.Applets.FrequencyMatrixApplet
checks whether the matrix is square
checkMinUseRows(int) - Method in class JavaGrinders.Variable
examines whether a minimum number rows is selected
checkMinVars(int) - Method in class JavaGrinders.VariableOrganizer
examines whether a minimum number of variables is selected
checkNumberIDs(int) - Method in class JavaGrinders.Variable
checks whether there is a given number of distinct IDs present in the currently selected set of rows
checkSameIDs(Variable) - Method in class JavaGrinders.Variable
checks whether two variables have identical sets of distinct IDs in the currently selected set of rows
checkSameSelectRows(Variable) - Method in class JavaGrinders.Variable
examines whether the same rows are selected as in another variable
checkSameSelectRows(VariableOrganizer) - Method in class JavaGrinders.Variable
examines whether the same rows are selected as in another variable
checkSameUseRows(Variable) - Method in class JavaGrinders.Variable
examines whether the same rows are selected and not missing as in another variable
checkSameUseRows(VariableOrganizer) - Method in class JavaGrinders.Variable
examines whether the same rows are selected and not missing as in another variable
checkSquare() - Method in class JavaGrinders.ContingencyTable
is matrix square?
checkValidRowRange(int) - Method in class JavaGrinders.Variable
checks whether a given row is within a valid range
checkValidRowRange(int) - Method in class JavaGrinders.VariableOrganizer
checks whether a given row is within a valid range
ChiSquare - Class in JavaGrinders.Utilities
 
ChiSquare() - Constructor for class JavaGrinders.Utilities.ChiSquare
 
ChiSqValue - Variable in class JavaGrinders.ContTableResults
 
ChiSqValueCorr - Variable in class JavaGrinders.ContTableResults
 
chol() - Method in class JavaGrinders.Jama.Matrix
Cholesky Decomposition
CholeskyDecomposition - Class in JavaGrinders.Jama
Cholesky Decomposition.
CholeskyDecomposition(Matrix) - Constructor for class JavaGrinders.Jama.CholeskyDecomposition
Cholesky algorithm for symmetric and positive definite matrix.
CIhigh - Variable in class JavaGrinders.spatial.CircularDescriptives
 
CIlow - Variable in class JavaGrinders.spatial.CircularDescriptives
 
circDispersion - Variable in class JavaGrinders.spatial.CircularDescriptives
 
CircularAnalyzer - Class in JavaGrinders.spatial
coordinates the analysis of directional data in an application.
CircularAnalyzer(VariableOrganizer) - Constructor for class JavaGrinders.spatial.CircularAnalyzer
Standard constructor using a VariableOrganizer
CircularDescriptives - Class in JavaGrinders.spatial
provides the interface for obtaining descriptive statistics from continuous variables.
CircularDescriptives() - Constructor for class JavaGrinders.spatial.CircularDescriptives
empty constructor ensures that the only objects of this type are the elements enumerated above
CircularGraphPresenter - Class in JavaGrinders.spatial
a presenter for circular graphs placed within a scrollpane within a frame.
CircularGraphPresenter(String) - Constructor for class JavaGrinders.spatial.CircularGraphPresenter
Standard constructor for the CircularGraphPresenter class
CircularGraphPresenter(String, AngleVariable) - Constructor for class JavaGrinders.spatial.CircularGraphPresenter
Standard constructor for the CircularGraphPresenter class
clear() - Method in class JavaGrinders.SGTracker.SGPathPlotter
clears the component
clear() - Method in class JavaGrinders.SGTracker.SGVideoComponent
clears the component with an empty repaint
clearAllDesignRoles() - Method in class JavaGrinders.Analyzer
clears all assigned design roles for the variables
clearAllDesignRoles() - Method in class JavaGrinders.VariableOrganizer
clears all assigned design roles for the variables
clearCell() - Method in class JavaGrinders.Applets.Cell
sets string content to empty and its number value to 0
clearCells() - Method in class JavaGrinders.Applets.CellMatrix
clears the cells
clearColumnPs() - Method in class JavaGrinders.ContingencyTable
clears the external probabilities
clearContent() - Method in class JavaGrinders.Applets.FrequencyMatrixApplet
clears the fields and expected cells
clearFields() - Method in class JavaGrinders.Applets.FrequencyMatrixApplet
clears the various fields
clearLastEvent() - Method in class JavaGrinders.PeripheralsControl.Coordinator
remove the last event information from the event item queue
clearPs() - Method in class JavaGrinders.ContingencyTable
clears the external probabilities
clearSums() - Method in class JavaGrinders.ContingencyTable
zero the sums for rows, columns, and total of the ContingencyTable
clearTable() - Method in class JavaGrinders.ContingencyTable
zero the sums for all individual cells of the ContingencyTable
clearTablePs() - Method in class JavaGrinders.ContingencyTable
clears the external probabilities
clearVariableDesignRoles() - Method in class JavaGrinders.VariableOrganizer
clears the design roles from all columns
clone() - Method in class JavaGrinders.ContingencyTable
clone the object
clone() - Method in class JavaGrinders.Descriptives
clone the object
clone() - Method in class JavaGrinders.Jama.Matrix
Clone the Matrix object.
clone() - Method in class JavaGrinders.spatial.AngleVariable
clone the object
clone() - Method in class JavaGrinders.spatial.GridSpace3D
clone the object
clone() - Method in class JavaGrinders.spatial.MapDimensions
clone the object
clone() - Method in class JavaGrinders.spatial.SpatialVector
clone the object
clone() - Method in class JavaGrinders.Variable
clone the object
clone() - Method in class JavaGrinders.VariableOrganizer
clone the object
cloneSelectedRowsOnly() - Method in class JavaGrinders.BooleanVariable
returns a BooleanVariable with only the selected rows
cloneSelectedRowsOnly() - Method in class JavaGrinders.spatial.CaptureVariable
returns a copy of the CaptureVariable contianing only the selected rows
cloneSelectedRowsOnly() - Method in class JavaGrinders.spatial.MoveVariable
returns a NumberVariable with only the selected rows
cloneSelectedRowsOnly() - Method in class JavaGrinders.StrVariable
returns a NumberVariable with only the selected rows
cloneSelectedRowsOnly() - Method in class JavaGrinders.Variable
returns a clone of the Variable with selected rows only
cloneVariableFrom(Variable) - Method in class JavaGrinders.Variable
fills the variable as a clone of the variable
closeEventLog() - Method in class JavaGrinders.PeripheralsControl.Coordinator
Close the specified event log file
closeSerialPort() - Method in class JavaGrinders.PeripheralsControl.LabProSerialPort
Close the serial port
CMAPumpController - Class in JavaGrinders.PeripheralsControl
the main class controlling a CMA microinfusion pump
CMAPumpController(int) - Constructor for class JavaGrinders.PeripheralsControl.CMAPumpController
standard constructor for the CMAPumpController class
collectData() - Method in class JavaGrinders.PeripheralsControl.LabProSerialPort
Collect data from photogates, and determine if they are blocked.
colorCodeSpeeds() - Method in class JavaGrinders.spatial.MoveVariable
lists the speed statistics for the variable using the currently selected set of rows
colorDominanceCells() - Method in class JavaGrinders.Applets.HierarchyMatrixApplet
sets the color of the cells of the dominance matrix, dominant - green; subordinate - blue
COLORLABEL - Static variable in class JavaGrinders.SGTracker.TrackingJobSetting
 
colorModel - Variable in class JavaGrinders.SGTracker.SGRecordProc
 
colorToHex(Color) - Static method in class JavaGrinders.Utilities.RHUtilities
Utility method to convert a Color into a KML color ref
colToString(int) - Method in class JavaGrinders.ContingencyTable
returns the formatted object as a string
combineSelectedWithSavedSelectedRows() - Method in class JavaGrinders.Variable
invert select rows
commentPanel1 - Variable in class JavaGrinders.SGTracker.SGTracker
 
commentPanel2 - Variable in class JavaGrinders.SGTracker.SGTracker
 
commentPanel3 - Variable in class JavaGrinders.SGTracker.SGTracker
 
completeCalculations() - Method in class JavaGrinders.parametric.CorrelationResults
fill all the remaining terms once the sums are filled
completeCalculations() - Method in class JavaGrinders.parametric.MultRegressionResults
fill all the remaining terms once the sums are filled
completeCalculations() - Method in class JavaGrinders.parametric.RegressionResults
fill all the remaining terms once the sums are filled
completeCalculations() - Method in class JavaGrinders.spatial.CircularDescriptives
fill all the remaining terms once the sums are filled
completeCalculations() - Method in class JavaGrinders.SquaresCrossproducts
fill all the remaining terms once the sums are filled
cond() - Method in class JavaGrinders.Jama.Matrix
Matrix condition (2 norm)
cond() - Method in class JavaGrinders.Jama.SingularValueDecomposition
Two norm condition number
Constraint - Class in JavaGrinders.spatial
implements the spatially explicit stage for the modelling
Constraint(double, double, double, double, double, double) - Constructor for class JavaGrinders.spatial.Constraint
constructor with the Dimensions provided
Constraint() - Constructor for class JavaGrinders.spatial.Constraint
empty constructor
Constraint(double, double, double, double) - Constructor for class JavaGrinders.spatial.Constraint
constructor with the Dimensions provided
constructWithCopy(double[][]) - Static method in class JavaGrinders.Jama.Matrix
Construct a matrix from a copy of a 2-D array.
contains(SpatialVector) - Method in class JavaGrinders.spatial.GridSpace3D
returns whether the GridSpace3D contains a SpatialVector
contains(GridSpace3D) - Method in class JavaGrinders.spatial.GridSpace3D
returns whether the GridSpace3D contains another GridSpace3D
contains(Point2D.Double) - Method in class JavaGrinders.spatial.GridSpace3D
returns whether the GridSpace3D contains a Point2D
ContainsZero() - Method in class JavaGrinders.Grid
returns whether the space contains the zero value
ContingencyAnalyzer - Class in JavaGrinders
coordinates the analysis of contingency tables in an application.
ContingencyAnalyzer(VariableOrganizer, boolean) - Constructor for class JavaGrinders.ContingencyAnalyzer
Standard constructor using a VariableOrganizer
ContingencyAnalyzer(VariableOrganizer) - Constructor for class JavaGrinders.ContingencyAnalyzer
Standard constructor using a VariableOrganizer, assuming that the diagonal is present
ContingencyAnalyzer(ContingencyTable) - Constructor for class JavaGrinders.ContingencyAnalyzer
Standard constructor, providing it with a contingency table directly
ContingencyTable - Class in JavaGrinders
contains a crosstabulation frequency table and performs a variety of statistics on it, including G-test, Chi-square, mantel, Kendall's Tau, etc.
ContingencyTable(int, int, boolean, String) - Constructor for class JavaGrinders.ContingencyTable
standard constructor for the ContingencyTable class
ContingencyTable(int, int, boolean) - Constructor for class JavaGrinders.ContingencyTable
standard constructor for the ContingencyTable class
ContingencyTable(int, int, String) - Constructor for class JavaGrinders.ContingencyTable
standard constructor for the ContingencyTable class
ContingencyTable(double[][]) - Constructor for class JavaGrinders.ContingencyTable
standard constructor for the ContingencyTable class
ContingencyTable(double[][], boolean) - Constructor for class JavaGrinders.ContingencyTable
standard constructor for the ContingencyTable class
ContingencyTable(Matrix, boolean) - Constructor for class JavaGrinders.ContingencyTable
constructor for the ContingencyTable class with a JAMA Matrix provided
CONTINUOUS - Static variable in class JavaGrinders.VariableType
 
ContResults - Variable in class JavaGrinders.GoodnessOfFitResults
 
controlAllDevices(Capture) - Method in class JavaGrinders.PeripheralsControl.DeviceInterface
controls all devices
controlAllDevices(Capture) - Method in class JavaGrinders.SGTracker.SGTracker
controls all peripheral devices based on the captured location
controlAnalyze_1Y1X(Variable, Variable) - Method in class JavaGrinders.Analyzer
coordinates an analysis of dependent onto independent variable
controlAnalyze_1YnX(Variable, VariableOrganizer) - Method in class JavaGrinders.Analyzer
coordinates an analysis of one dependent onto multiple independent variable.
controlAnalyze_nY(VariableOrganizer) - Method in class JavaGrinders.Analyzer
coordinates an analysis of multiple dependent variable.
controlAnalyze_nY1X(VariableOrganizer, Variable) - Method in class JavaGrinders.Analyzer
coordinates an analysis of multiple dependent onto one independent variable.
controlAnalyze_nYnX(VariableOrganizer, VariableOrganizer) - Method in class JavaGrinders.Analyzer
coordinates an analysis of multiple dependent onto multiple independent variable.
controlDevice(Capture) - Method in class JavaGrinders.PeripheralsControl.DeviceController
standard constructor for the DeviceController class
controlDevice(SpatialVector) - Method in class JavaGrinders.PeripheralsControl.DeviceController
standard constructor for the DeviceController class
controlDevice(Pixel) - Method in class JavaGrinders.PeripheralsControl.DeviceController
control the device depending on screen location
ContTableResults - Class in JavaGrinders
holds a set of results obtained for an analysis of a contingency table
ContTableResults() - Constructor for class JavaGrinders.ContTableResults
 
convertLatLongDegsToDistance(double, double, double, double) - Static method in class JavaGrinders.Utilities.RHUtilities
Returns the straight-line distance (in meters) between two locations defined as longitude/latitude (in degrees)
convertLatLongRadsToDistance(double, double, double, double) - Static method in class JavaGrinders.Utilities.RHUtilities
Returns the straight-line distance (in meters) between two locations defined as longitude/latitude (in radians)
convertQTToColorJImage(PixMap) - Static method in class JavaGrinders.SGTracker.ImagePixels
converts an image from quicktime to java space
convertQTToColorJImage(PixMap, int) - Static method in class JavaGrinders.SGTracker.ImagePixels
converts an image from quicktime to java space
Coordinator - Class in JavaGrinders.PeripheralsControl
Title: Coordinator of the Bee Monitor
Coordinator(int) - Constructor for class JavaGrinders.PeripheralsControl.Coordinator
Default constructor of the class Coordinator
copy() - Method in class JavaGrinders.Jama.Matrix
Make a deep copy of a matrix
copy(PolarVector) - Method in class JavaGrinders.spatial.PolarVector
copy other vector into this one
copy(SpatialVector) - Method in class JavaGrinders.spatial.SpatialVector
copy other vector into this one
copyCircularDescriptives() - Method in class JavaGrinders.spatial.AngleVariable
returns descriptive Circular Statistic for the variable using the currently selected set of rows
copyDescriptives() - Method in class JavaGrinders.Variable
returns the descriptives for the variable
copyMatrixSumsToCells() - Method in class JavaGrinders.Applets.CellMatrix
recalculates the sums around the data matrix
copyMatrixToCells() - Method in class JavaGrinders.Applets.CellMatrix
fills the cells with the values from the data matrix
copyMoveDescriptives() - Method in class JavaGrinders.spatial.MoveVariable
fills and returns the Descriptives
copyNumberDescriptives() - Method in class JavaGrinders.NumberVariable
returns descriptive Statistic for the variable using the currently selected set of rows
copySelectStateFrom(Variable) - Method in class JavaGrinders.Variable
sets the select flag for all rows based on select state of another variable
copySelectStateFrom(Variable) - Method in class JavaGrinders.VariableOrganizer
sets the select flag for all rows based on select state of another variable
copySpatialDescriptives() - Method in class JavaGrinders.spatial.CaptureVariable
fills the descriptive statistics for the variable and returns the results
CorrelationResults - Class in JavaGrinders.parametric
provides the interface for obtaining descriptive statistics from continuous variables.
CorrelationResults() - Constructor for class JavaGrinders.parametric.CorrelationResults
empty constructor
cos2Sum - Variable in class JavaGrinders.spatial.CircularDescriptives
 
cosSum - Variable in class JavaGrinders.spatial.CircularDescriptives
 
countNEq(double, double) - Method in class JavaGrinders.spatial.AngleVariable
find the number of angles that are between or equal the two angles in a clockwise direction
countNLe(double, double) - Method in class JavaGrinders.spatial.AngleVariable
find the number of angles that are between or equal the two angles in a clockwise direction
createContingencyTable() - Method in class JavaGrinders.ContingencyAnalyzer
checks for a crosstabulation (i.e., frequency) ContingencyTable.
createCrossTabulationtionTable() - Method in class JavaGrinders.ContingencyAnalyzer
checks for a crosstabulation (i.e., frequency) ContingencyTable.
createTable() - Method in class JavaGrinders.ContingencyAnalyzer
checks for a crosstabulation (i.e., frequency) ContingencyTable.
createTransitionTable() - Method in class JavaGrinders.ContingencyAnalyzer
checks for a crosstabulation (i.e., frequency) ContingencyTable.
cross(SpatialVector) - Method in class JavaGrinders.spatial.SpatialVector
Calculates the cross product of this vector and the one passed to it.
currentTime - Variable in class JavaGrinders.SGTracker.SGRecordProc
 
customColorSelectedRows(Color, boolean) - Method in class JavaGrinders.Variable
sets a custom colors for all selected rows
CV - Variable in class JavaGrinders.NumberDescriptives
 

D

DARKOBJECT - Static variable in class JavaGrinders.SGTracker.TrackingJobSetting
 
DataFileParser - Class in JavaGrinders
interfaces with disk-based files.
DataFileParser(String) - Constructor for class JavaGrinders.DataFileParser
standard constructor for the DataFileParser class
DataFileParser() - Constructor for class JavaGrinders.DataFileParser
constructor for the DataFileParser class if no text file name is provided
DataTable - Class in JavaGrinders
Unlike a contingency table, a data table may contain negative values (e.g.
DataTable(int, int, boolean, String) - Constructor for class JavaGrinders.DataTable
standard constructor for the DataTable class
DataTable(int, int, boolean) - Constructor for class JavaGrinders.DataTable
standard constructor for the DataTable class
DataTable(Matrix, boolean) - Constructor for class JavaGrinders.DataTable
constructor for the DataTable class with a JAMA Matrix provided
DataTable(double[][]) - Constructor for class JavaGrinders.DataTable
standard constructor for the ContingencyTable class
DataTablePresenter - Class in JavaGrinders
given a DataParser object, its content is formatted automatically and presented as a JTable object placed within a scrollpane within a frame
DataTablePresenter(VariableOrganizer, String) - Constructor for class JavaGrinders.DataTablePresenter
Standard constructor for the DataTablePresenter class using a VariableOrganizer
dataToPlotCoordinates(SpatialVector) - Method in class JavaGrinders.spatial.SpatialMapPresenter
locates a SpatialVector scaled to frame coordinates
DATETIME - Static variable in class JavaGrinders.VariableFormat
 
defPixelFormat - Static variable in class JavaGrinders.SGTracker.SGTracker
 
defVideoRect - Variable in class JavaGrinders.SGTracker.TrackingJobSettingsGroup
 
deleteAllRows() - Method in class JavaGrinders.Variable
delete all rows from the Variable
deleteCol(int) - Method in class JavaGrinders.VariableOrganizer
delete a column from the VariableOrganizer
deleteCols() - Method in class JavaGrinders.VariableOrganizer
delete all columns from the Organizer
deleteColsNonX() - Method in class JavaGrinders.VariableOrganizer
delete all non-X-selected columns from the Organizer
deleteColsNonY() - Method in class JavaGrinders.VariableOrganizer
delete all non-Y-selected columns from the Organizer
deleteDuplicateRows() - Method in class JavaGrinders.Variable
sets the select flag for all duplicate rows
deleteMissingRows() - Method in class JavaGrinders.Variable
deletes all missing rows
deleteNonSelectedRows() - Method in class JavaGrinders.Variable
delete all non-selected rows
deleteRow(int) - Method in class JavaGrinders.Variable
delete a row from the Variable
deleteRow(int) - Method in class JavaGrinders.VariableOrganizer
deletes a row from all the variables that are registered with the VariableOrganizer
deleteRows() - Method in class JavaGrinders.VariableOrganizer
deletes all rows from all the variables that are registered with the VariableOrganizer
deleteRowsNonSelect() - Method in class JavaGrinders.VariableOrganizer
delete all non-selected rows from the Organizer
deleteSelectedRows() - Method in class JavaGrinders.Variable
deletes all selected rows
deleteTrackingJobSetting(int) - Method in class JavaGrinders.SGTracker.TrackingJobSettingsGroup
returns a specific tracking jobs
describePixels(Rectangle, int, int) - Method in class JavaGrinders.SGTracker.ImagePixels
describes the differences found
Descriptives - Class in JavaGrinders
provides the interface for obtaining descriptive statistics from continuous variables.
Descriptives() - Constructor for class JavaGrinders.Descriptives
empty private constructor ensures that the only objects of this type are the elements enumerated above
deselectAllRows() - Method in class JavaGrinders.Variable
sets the select flag for all rows to false
deselectAllRows() - Method in class JavaGrinders.VariableOrganizer
sets the select flag for all rows to false
deselectMissingRows() - Method in class JavaGrinders.VariableOrganizer
unselects all rows if a value is missing in any of the included variables
det() - Method in class JavaGrinders.Jama.LUDecomposition
Determinant
det() - Method in class JavaGrinders.Jama.Matrix
Matrix determinant
DeviceController - Class in JavaGrinders.PeripheralsControl
the main class controlling a microinfusion pump
DeviceController() - Constructor for class JavaGrinders.PeripheralsControl.DeviceController
standard constructor for the DeviceController class
DeviceController(int) - Constructor for class JavaGrinders.PeripheralsControl.DeviceController
standard constructor for the DeviceController class
DeviceInterface - Class in JavaGrinders.PeripheralsControl
the main class that represents an interface for external devices
DeviceInterface(int) - Constructor for class JavaGrinders.PeripheralsControl.DeviceInterface
standard constructor for the DeviceInterface class
df - Variable in class JavaGrinders.Analyzer
 
df - Variable in class JavaGrinders.ContTableResults
 
df - Variable in class JavaGrinders.parametric.ParametricTerm
 
df - Variable in class JavaGrinders.Variable
 
df0 - Variable in class JavaGrinders.Descriptives
 
df2 - Variable in class JavaGrinders.Descriptives
 
df4 - Variable in class JavaGrinders.Descriptives
 
df5 - Variable in class JavaGrinders.Descriptives
 
dfE - Variable in class JavaGrinders.parametric.RegressionResults
 
dfM - Variable in class JavaGrinders.parametric.RegressionResults
 
dfMComplete - Variable in class JavaGrinders.parametric.RegressionResults
 
dfMP - Variable in class JavaGrinders.parametric.RegressionResults
 
dfT - Variable in class JavaGrinders.parametric.RegressionResults
 
diagonal - Variable in class JavaGrinders.ContingencyAnalyzer
 
diagonal - Variable in class JavaGrinders.ContingencyTable
 
diagonal - Variable in class JavaGrinders.ContTableResults
 
displayVideo - Variable in class JavaGrinders.SGTracker.SGTracker
 
distance(double) - Method in class JavaGrinders.NumberVariable
the absolute value after subtracting the constant from each value of the variable
distanceMax - Variable in class JavaGrinders.spatial.MoveDescriptives
 
distanceMean - Variable in class JavaGrinders.spatial.MoveDescriptives
 
distanceMin - Variable in class JavaGrinders.spatial.MoveDescriptives
 
distanceTotal - Variable in class JavaGrinders.spatial.MoveDescriptives
 
doAnalyze_1Y(Variable) - Method in class JavaGrinders.Analyzer
lists the descriptive statistics results for a variables
doAnalyze_1Y(Variable, Double) - Method in class JavaGrinders.Analyzer
lists the results from a comparison with an a-priori mean
doAnalyze_1Y(Variable) - Method in class JavaGrinders.ContingencyAnalyzer
lists the results from a transition analysis of the variables.
doAnalyze_1Y1X2Groups(Variable, Variable) - Method in class JavaGrinders.Analyzer
lists the results from an analysis of one dependent variable on one indepent variable (with 2 states).
doAnalyze_1Y1X2Groups(Variable, Variable) - Method in class JavaGrinders.ContingencyAnalyzer
performs a Contingency analysis (Y variable with 2 groups)
doAnalyze_1Y1X2Groups(Variable, Variable) - Method in class JavaGrinders.HierarchyAnalyzer
performs a parametric analysis with one Y and one X variable (with 2 groups)
doAnalyze_1Y1X2Groups(Variable, Variable) - Method in class JavaGrinders.spatial.CircularAnalyzer
lists the results from an analysis of one dependent variable on one indepent variable (with 2 states).
doAnalyze_1Y1Xcontinuous(Variable, Variable) - Method in class JavaGrinders.Analyzer
lists the results from an analysis of one dependent variable on one continuous indepent variable.
doAnalyze_1Y1Xcontinuous(Variable, Variable) - Method in class JavaGrinders.parametric.ParametricAnalyzer
lists the results from an analysis of one indepent (continuous) and one dependent variable.
doAnalyze_1Y1XnGroups(Variable, Variable) - Method in class JavaGrinders.Analyzer
lists the results from an analysis of one dependent variable on one indepent variable (with >2 states).
doAnalyze_1Y1XnGroups(Variable, Variable) - Method in class JavaGrinders.ContingencyAnalyzer
performs a Contingency analysis (Y variable with n groups)
doAnalyze_1Y1XnGroups(Variable, Variable) - Method in class JavaGrinders.HierarchyAnalyzer
performs a parametric analysis with one Y and one X variable (with multiple groups)
doAnalyze_1Y1XnGroups(Variable, Variable) - Method in class JavaGrinders.parametric.ParametricAnalyzer
lists the results from an analysis of one indepent (with 2 states) and one dependent variable.
doAnalyze_1Y1XnGroups(Variable, Variable) - Method in class JavaGrinders.spatial.CircularAnalyzer
lists the results from an analysis of one dependent variable on one indepent variable (with >2 states).
doAnalyze_1YnXcontinuous(Variable, VariableOrganizer) - Method in class JavaGrinders.Analyzer
lists the results from an analysis of one dependent variable on multiple indepent variable.
doAnalyze_1YnXcontinuous(Variable, VariableOrganizer) - Method in class JavaGrinders.parametric.MultiVarAnalyzer
lists the results from an analysis of one dependent variable on multiple indepent variable.
doAnalyze_1YnXnGroups(Variable, VariableOrganizer) - Method in class JavaGrinders.Analyzer
lists the results from an analysis of one dependent variable on multiple indepent variable.
doAnalyze_1YnXnGroups(Variable, VariableOrganizer) - Method in class JavaGrinders.parametric.ParametricAnalyzer
lists the results from an analysis of one dependent variable on multiple indepent variable.
doAnalyze_nY(VariableOrganizer) - Method in class JavaGrinders.Analyzer
performs an analysis of multiple dependent variable.
doAnalyze_nY(VariableOrganizer) - Method in class JavaGrinders.ContingencyAnalyzer
controls an analysis of multiple dependent variables
doAnalyze_nY(VariableOrganizer) - Method in class JavaGrinders.parametric.MultiVarAnalyzer
performs an analysis of multiple dependent variable.
doAnalyze_nY(VariableOrganizer) - Method in class JavaGrinders.parametric.ParametricAnalyzer
performs an analysis of multiple dependent variable.
doAnalyze_nY1Xcontinuous(VariableOrganizer, Variable) - Method in class JavaGrinders.Analyzer
lists the results from an analysis of one dependent continuous variable on multiple indepent variable.
doAnalyze_nY1XnGroups(VariableOrganizer, Variable) - Method in class JavaGrinders.Analyzer
lists the results from an analysis of one ordinal or nominal dependent variable on multiple indepent variable.
doAnalyze_nY1XnGroups(VariableOrganizer, Variable) - Method in class JavaGrinders.ReplicatedGAnalyzer
lists the results from an analysis of one dependent variable on multiple indepent variable.
doAnalyze_nYnX(VariableOrganizer, VariableOrganizer) - Method in class JavaGrinders.Analyzer
lists the results from an analysis of one dependent variable on multiple indepent variable.
doAngleDegRange(double) - Static method in class JavaGrinders.Utilities.RHUtilities
Takes an angle in Degrees (°) and ranges it to 0 <-> 360
doAngleRadRange(double) - Static method in class JavaGrinders.Utilities.RHUtilities
Takes an angle in Radians and ranges it to 0 <-> 360°
doANOVA(Variable, NumberVariable) - Method in class JavaGrinders.parametric.ParametricAnalyzer
lists the results for an Analysis of Variance (ANOVA)
doChiSquare() - Method in class JavaGrinders.Applets.FrequencyMatrixApplet
coordinates a Chi-square test on the observed values
doClear() - Method in class JavaGrinders.Presenter
handles a clear event
doClose() - Method in class JavaGrinders.DataTablePresenter
handles a close event
doClose() - Method in class JavaGrinders.PicturePresenter
handles a close event
doClose() - Method in class JavaGrinders.Presenter
handles a close Document event
doCompare_1Y(double, NumberVariable) - Method in class JavaGrinders.parametric.ParametricAnalyzer
lists the results from an analysis of one indepent (with 2 states) and one dependent variable.
doCopy() - Method in class JavaGrinders.Presenter
handles a copy event
doCorrelationAnalysis(NumberVariable) - Method in class JavaGrinders.NumberVariable
fills the regression statistics for the variable with control over th intercept
doCut() - Method in class JavaGrinders.Presenter
handles a cut event
doDescribeX() - Method in class JavaGrinders.StatTablePresenter
handles the describe all X variables event
doDescribeY() - Method in class JavaGrinders.StatTablePresenter
handles the describe all Y variables event
doDiscriminant() - Method in class JavaGrinders.parametric.MultiVarAnalyzer
lists the results for a Discriminant Analysis
doFactorialANOVA(NumberVariable, VariableOrganizer) - Method in class JavaGrinders.parametric.ParametricAnalyzer
lists the results for an Analysis of Variance (ANOVA)
doFitXY() - Method in class JavaGrinders.StatTablePresenter
handles the fit Y by X variables event
doFTukey() - Method in class JavaGrinders.Applets.FrequencyMatrixApplet
coordinates a calculation of Freeman-Tukey deviates on the observed values
doFTukeyOnPropFitting() - Method in class JavaGrinders.Applets.FrequencyMatrixApplet
coordinates a calculation of Freeman-Tukey deviates on the observed values after proportional fitting of the observed values
doFTukeyOnTotals() - Method in class JavaGrinders.Applets.FrequencyMatrixApplet
coordinates a calculation of Freeman-Tukey deviates on the observed values after upper and lower matrix have been summed
doGValue() - Method in class JavaGrinders.Applets.FrequencyMatrixApplet
coordinates a G-test on the observed values
doHierarchyAnalysis() - Method in class JavaGrinders.HierarchyAnalyzer
reports individual ordinal ranks and a hierachy analysis for a dominance matrix
doHotellingF(Variable, Variable) - Method in class JavaGrinders.spatial.CircularAnalyzer
controls the Analysis of mean angles
doLinearity() - Method in class JavaGrinders.Applets.HierarchyMatrixApplet
calculate and report the estimates of linearity
doLinRegressionAnalysis(NumberVariable) - Method in class JavaGrinders.NumberVariable
fills the regression statistics for the variable with control over the intercept
DominanceTable - Class in JavaGrinders
contains a table of dominance relationships and performs a variety of statistics on it, including test of linearity, ordinal ranks, etc.
DominanceTable(int) - Constructor for class JavaGrinders.DominanceTable
standard constructor for the DominanceTable class
DominanceTable(int, double[][]) - Constructor for class JavaGrinders.DominanceTable
standard constructor for the DominanceTable class
doMultLinRegression(NumberVariable, VariableOrganizer) - Method in class JavaGrinders.parametric.MultiVarAnalyzer
lists the results for a Multiple Regression Analysis
doNew() - Method in class JavaGrinders.Presenter
handles a new Document event
doOpen() - Method in class JavaGrinders.Presenter
handles an open Document event
doPaste() - Method in class JavaGrinders.Presenter
handles a paste event
doPCA(VariableOrganizer) - Method in class JavaGrinders.parametric.ParametricAnalyzer
performs a principal components analysis for all dependent variables.
doPickColors - Variable in class JavaGrinders.SGTracker.SGVideoComponent
 
doRanks() - Method in class JavaGrinders.Applets.HierarchyMatrixApplet
calculate and report ranks
doRecordRects - Variable in class JavaGrinders.SGTracker.SGVideoComponent
 
doRegression(NumberVariable, NumberVariable) - Method in class JavaGrinders.parametric.ParametricAnalyzer
lists the results for a Regression Analysis
doSave() - Method in class JavaGrinders.DataTablePresenter
handles a save event
doSave() - Method in class JavaGrinders.PicturePresenter
handles a save event
doSave() - Method in class JavaGrinders.Presenter
handles a save Document event
doSaveAs() - Method in class JavaGrinders.DataTablePresenter
handles a save as event
doSaveAs() - Method in class JavaGrinders.PicturePresenter
handles a save as event
doSaveAs() - Method in class JavaGrinders.Presenter
handles a save as ...
doSelectAll() - Method in class JavaGrinders.Presenter
handles a select all event
dot(SpatialVector) - Method in class JavaGrinders.spatial.SpatialVector
Calculates the dot product of this vector and another
doTauKr() - Method in class JavaGrinders.Applets.FrequencyMatrixApplet
coordinates a calculation of Kendall Tau value for a correlation between an actor and a receiver matrix
doTracePt - Variable in class JavaGrinders.SGTracker.SGVideoComponent
 
doTraceRect - Variable in class JavaGrinders.SGTracker.SGVideoComponent
 
dotTest(double, NumberVariable) - Method in class JavaGrinders.parametric.ParametricAnalyzer
lists the results for a t-test
doUndo() - Method in class JavaGrinders.Presenter
handles an undo event
doWarnings - Variable in class JavaGrinders.Grid
 
doWarnings - Variable in class JavaGrinders.spatial.GridSpace3D
 
doWatsonU2(Variable, Variable) - Method in class JavaGrinders.spatial.CircularAnalyzer
controls the Analysis of mean angles
doWatsonWilliamsF(Variable, Variable) - Method in class JavaGrinders.spatial.CircularAnalyzer
controls the Analysis of mean angles
doWheelerW(Variable, Variable) - Method in class JavaGrinders.spatial.CircularAnalyzer
controls the Analysis of mean angles
DoWilliamsCorr() - Method in class JavaGrinders.ContingencyTable
calculates the William's correction
drawAnalysisRects() - Method in class JavaGrinders.SGTracker.SGPathPlotter
draws the outline of the areas of interest into the plotting canvas
drawCell(Graphics) - Method in class JavaGrinders.Applets.Cell
draws the cell
drawCell(Graphics) - Method in class JavaGrinders.Applets.Cell3D
draws the cell
drawLabel(Graphics) - Method in class JavaGrinders.Applets.Cell
draws the label for the cell

E

editMenu - Variable in class JavaGrinders.SGTracker.SGTracker
 
eig() - Method in class JavaGrinders.Jama.Matrix
Eigenvalue Decomposition
EigenvalueDecomposition - Class in JavaGrinders.Jama
Eigenvalues and eigenvectors of a real matrix.
EigenvalueDecomposition(Matrix) - Constructor for class JavaGrinders.Jama.EigenvalueDecomposition
Check for symmetry, then construct the eigenvalue decomposition
end - Variable in class JavaGrinders.spatial.SpatialDescriptives
 
equals(SpatialVector) - Method in class JavaGrinders.spatial.SpatialVector
Tests whether or not two vectors are identical in respect to x,y,z coordinates.
estimateD(double, double, double) - Method in class JavaGrinders.spatial.CaptureVariable
returns the fractal dimension of the coordinates
EUCLIDIAN - Static variable in class JavaGrinders.DataTable
 
execute(SGChannel, QTPointerRef, int, int, int, int) - Method in class JavaGrinders.SGTracker.SGRecordProc
performs the basic time management needed for SGRecordProcs, call this method from your subclass to see whether your function should record or not
execute(SGChannel, QTPointerRef, int, int, int, int) - Method in class JavaGrinders.SGTracker.SGSimpleRecordProc
performs the basic time management needed for SGRecordProcs, call this method from your subclass to see whether your function should record or not
EXTERNALREFERENCEIN - Static variable in class JavaGrinders.SGTracker.SGTracker
 
EXTERNALREFERENCEOUT - Static variable in class JavaGrinders.SGTracker.SGTracker
 

F

F - Variable in class JavaGrinders.parametric.CorrelationResults
 
F - Variable in class JavaGrinders.parametric.RegressionResults
 
factorial - Variable in class JavaGrinders.parametric.RegressionResults
 
factorial(int) - Static method in class JavaGrinders.Utilities.RHUtilities
Returns the factorial of a number
FileData - Variable in class JavaGrinders.DataFileParser
 
fileMenu - Variable in class JavaGrinders.SGTracker.SGTracker
 
fileName - Variable in class JavaGrinders.SGTracker.SGTracker
 
fileWrite(String) - Method in class JavaGrinders.SGTracker.SGTracker
main function to report a string to the file
fileWrite(Pixel) - Method in class JavaGrinders.SGTracker.SGTracker
report the pixel to the file
fileWriteln(String) - Method in class JavaGrinders.SGTracker.SGTracker
report a string and carriage return to the file
fileWriteln() - Method in class JavaGrinders.SGTracker.SGTracker
report a carriage return to the file
fill(Polygon) - Method in class JavaGrinders.spatial.CaptureVariable
fills the variable with locations from x and y coordinates that mark the corners of a polygon.
fill(NumberVariable, NumberVariable) - Method in class JavaGrinders.spatial.CaptureVariable
Fills the variable with captures, x and y variable from the same row are assumed to belong together
fill(NumberVariable, NumberVariable, NumberVariable, TimeVariable) - Method in class JavaGrinders.spatial.CaptureVariable
Fills the variable with captures, x and y variable from the same row are assumed to belong together
fill(NumberVariable, NumberVariable, TimeVariable) - Method in class JavaGrinders.spatial.CaptureVariable
Fills the variable with captures, x and y variable from the same row are assumed to belong together
fill(PolarVector[]) - Method in class JavaGrinders.spatial.CaptureVariable
fills the variable with captures
fill(SpatialVector[]) - Method in class JavaGrinders.spatial.CaptureVariable
fills the variable with captures
fill(NumberVariable, NumberVariable, NumberVariable, IntegerVariable) - Method in class JavaGrinders.spatial.MoveVariable
fills the variable with moves starting from 0,0,0.
fill(int, Object) - Method in class JavaGrinders.Variable
fills the variable with the given value in every row.
fill(int, double) - Method in class JavaGrinders.Variable
fills the variable with a constant
fill(Object[], boolean) - Method in class JavaGrinders.Variable
fills the variable with the given value in every row.
fill(Object[]) - Method in class JavaGrinders.Variable
fills the variable with the given value in every row.
fill(double[]) - Method in class JavaGrinders.Variable
fills the variable with individual datavalues from a double array
fill(int[]) - Method in class JavaGrinders.Variable
fills the variable with individual datavalues from a double array
fillBackground() - Method in class JavaGrinders.PicturePresenter
adds a Pict to the current contentPict - this is not working right
fillCompleteTerms(VariableOrganizer, ANOVAResults) - Method in class JavaGrinders.NumberVariable
fills the n-way interaction terms for the ANOVA
fillDescriptives(Double) - Method in class JavaGrinders.NumberVariable
fills the descriptive circular statistics for the angle variable with a comparison to an external mean
fillDescriptives(Double) - Method in class JavaGrinders.spatial.AngleVariable
fills the descriptive circular statistics for the angle variable with a comparison to an external mean
fillDescriptives(Double, boolean) - Method in class JavaGrinders.spatial.AngleVariable
fills the descriptive circular statistics for the angle variable with a comparison to an external mean
fillDescriptives(Double) - Method in class JavaGrinders.spatial.CaptureVariable
fills the descriptive statistics for the variable - locations
fillDescriptives(Double) - Method in class JavaGrinders.spatial.MoveVariable
fills the descriptive statistics for the variable, at the root level only a check for valid data points is performed
fillDescriptives() - Method in class JavaGrinders.Variable
fills the descriptive statistics for the variable, at the root level only a check for valid data points is performed
fillDescriptives(Double) - Method in class JavaGrinders.Variable
fills the descriptive statistics for the variable, at the root level only a check for valid data points is performed
fillFactorialTermNames(VariableOrganizer) - Method in class JavaGrinders.parametric.RegressionResults
fills the n-way interaction terms for the ANOVA
fillFinalTerm() - Method in class JavaGrinders.parametric.RegressionResults
 
fillGrayPixels() - Method in class JavaGrinders.SGTracker.ImagePixelsColor
obtains gray values for each pixel from color information
fillGrid() - Method in class JavaGrinders.Grid
fills grid with values
fillIDs() - Method in class JavaGrinders.Variable
fills a TreeMap with different values found in the variable using the currently selected set of rows
fillInterestingAngles() - Method in class JavaGrinders.spatial.AngleVariable
fills a variable with angles that should be examined
fillInterestingMedianAngles() - Method in class JavaGrinders.spatial.AngleVariable
fills a variable with angles that should be examined as median
fillMoreDescriptives() - Method in class JavaGrinders.spatial.AngleVariable
fills the descriptive circular statistics for the angle variable
fillPerms() - Method in class JavaGrinders.ContingencyTable
fills the array with all possible (or desired) permutations
fillSums() - Method in class JavaGrinders.ContingencyTable
calculate sums for rows, columns and total of the ContingencyTable
fillWithFormula(String) - Method in class JavaGrinders.NumberVariable
fills the variable with individual datavalues created through a formula
fillWithGaussRandom(double, double) - Method in class JavaGrinders.NumberVariable
fills the variable with random values from a Gaussian Distribution
fillWithGaussRandom(Capture, double, double, boolean) - Method in class JavaGrinders.spatial.CaptureVariable
fills the variable with random values from a uniform distribution between 0 and 1
fillWithMilliSecondsVariable(IntegerVariable) - Method in class JavaGrinders.spatial.TimeVariable
fills the variable with individual datavalues read from a textfile using a DataFileParser object
fillWithParser(DataFileParser, int) - Method in class JavaGrinders.BooleanVariable
fills the variable with individual datavalues read from a textfile using a DataFileParser object
fillWithParser(DataFileParser, int, boolean) - Method in class JavaGrinders.CharVariable
fills the variable with individual datavalues read from a textfile using a DataFileParser object
fillWithParser(DataFileParser, int, boolean) - Method in class JavaGrinders.NumberVariable
fills the variable with individual datavalues read from a textfile using a DataFileParser object
fillWithParser(DataFileParser, int, boolean) - Method in class JavaGrinders.spatial.AngleVariable
fills the variable with individual data values read from a textfile using a DataFileParser object
fillWithParser(DataFileParser, int, boolean) - Method in class JavaGrinders.spatial.TimeVariable
fills the variable with individual datavalues read from a textfile using a DataFileParser object
fillWithParser(DataFileParser, int, boolean, String) - Method in class JavaGrinders.spatial.TimeVariable
fills the variable with individual datavalues read from a textfile using a DataFileParser object
fillWithParser(DataFileParser, int, boolean) - Method in class JavaGrinders.StringVariable
fills the variable with individual datavalues read from a textfile using a DataFileParser object
fillWithParser(DataFileParser, int, boolean) - Method in class JavaGrinders.StrVariable
fills the variable with individual datavalues read from a textfile using a DataFileParser object
fillWithParser(DataFileParser, int, boolean) - Method in class JavaGrinders.Variable
fills the variable with individual datavalues read from a textfile using a DataFileParser object.
fillWithParser(DataFileParser, int) - Method in class JavaGrinders.Variable
fills the variable with individual datavalues read from a textfile using a DataFileParser object.
fillWithParser_mSecs(DataFileParser, int, boolean) - Method in class JavaGrinders.spatial.TimeVariable
fills the variable with individual datavalues read from a textfile using a DataFileParser object
fillWithRandomFromDistribution(NumberVariable) - Method in class JavaGrinders.NumberVariable
fills the variable with random values from a Gaussian Distribution
fillWithRandomFromDistribution(NumberVariable) - Method in class JavaGrinders.spatial.AngleVariable
fills the variable with random values from a Gaussian Distribution
fillWithRandomFromDistribution(Capture) - Method in class JavaGrinders.spatial.CaptureVariable
fills the variable with random values from a Distribution of Moves
fillWithRowNum() - Method in class JavaGrinders.NumberVariable
fills the variable with individual datavalues created through a formula
fillWithUniformRandom() - Method in class JavaGrinders.NumberVariable
fills the variable with random values from a uniform distribution between 0 and 1
fillWithUniformRandom() - Method in class JavaGrinders.spatial.AngleVariable
fills the variable with random values from a uniform distribution between 0 and 360
fillWithVariable(IntegerVariable) - Method in class JavaGrinders.spatial.TimeVariable
fills the variable as a clone of the variable
fillWithVariable(Variable) - Method in class JavaGrinders.Variable
fills the variable as a clone of the variable
fillXPlotGrid() - Method in class JavaGrinders.spatial.SpatialMapPresenter
fills the plot grid in x with the appropriate screen coordinates
fillYPlotGrid() - Method in class JavaGrinders.spatial.SpatialMapPresenter
fills the plot grid in y with the appropriate screen coordinates
findEdgePixel(Pixel, int, Rectangle) - Method in class JavaGrinders.SGTracker.ImagePixels
finds the oputline of an object
findFirstSelectedRow() - Method in class JavaGrinders.VariableOrganizer
returns the first selected row of the variable
findFirstValidRow() - Method in class JavaGrinders.Variable
returns the first selected row of the variable
findLastSelectedRow() - Method in class JavaGrinders.VariableOrganizer
returns the last selected row of the variable
findLastValidRow() - Method in class JavaGrinders.Variable
returns the last selected row of the variable
findNextNonMissingRow(int) - Method in class JavaGrinders.Variable
returns the next selected row after a given row
findNextNonMissingRow(int) - Method in class JavaGrinders.VariableOrganizer
returns the next non missing row after a given row
findNextSelectedRow(int) - Method in class JavaGrinders.VariableOrganizer
returns the next selected row after a given row
findNextValidCell() - Method in class JavaGrinders.Applets.FrequencyMatrixApplet
returns the next valid cell in the data matrix
findNextValidRow(int) - Method in class JavaGrinders.Variable
returns the next selected row after a given row
findNextValue(int, Object) - Method in class JavaGrinders.Variable
returns the next selected row after a given row
findPreviousSelectedRow(int) - Method in class JavaGrinders.VariableOrganizer
returns the next lower selected row before a given row
findPreviousValidRow(int) - Method in class JavaGrinders.Variable
returns the next lower selected row before a given row
fold(double[], int, int, boolean) - Method in class JavaGrinders.ContingencyTable
folds an array of doubles into a DataTable and returns the object
FP - Variable in class JavaGrinders.parametric.RegressionResults
 
FProb - Variable in class JavaGrinders.parametric.CorrelationResults
 
fractalDimension - Variable in class JavaGrinders.spatial.MoveDescriptives
 
FREQ - Static variable in class JavaGrinders.VariableDesignRole
 
frequencies - Variable in class JavaGrinders.Descriptives
 
FrequencyMatrixApplet - Class in JavaGrinders.Applets
manages the graphical user interface for the applet that implements analyses of crosstabulation frequency tables.
FrequencyMatrixApplet() - Constructor for class JavaGrinders.Applets.FrequencyMatrixApplet
 
FRONT - Static variable in class JavaGrinders.spatial.View
 
FULL - Variable in class JavaGrinders.Applets.FrequencyMatrixApplet
 
fw - Static variable in class JavaGrinders.SGTracker.SGTracker
 

G

generateCaptures(int) - Method in class JavaGrinders.spatial.SpatialModellingFramework
generates a set of Captures for all animals covered by the framework
generateMoves(int, double, double, boolean) - Method in class JavaGrinders.spatial.SpatialModellingFramework
generates a set of Moves for all animals covered by the framework
generateMoves(int, boolean, boolean) - Method in class JavaGrinders.spatial.SpatialModellingFramework
generates a set of Moves for all animals covered by the framework
generateMovesFromZero(int, double, double, boolean) - Method in class JavaGrinders.spatial.SpatialModellingFramework
generates a set of Moves starting from zero for all animals covered by the framework
get(int, int) - Method in class JavaGrinders.Jama.Matrix
Get a single element.
getAbasedintValue(int) - Method in class JavaGrinders.Variable
returns the instance of char stored at a given row of the Vector and converts it into an integer starting with 0 at a char of 'A'
getabasedintValue(int) - Method in class JavaGrinders.Variable
returns the instance of char stored at a given row of the Vector and converts it into an integer starting with 0 at a char of 'a'
getAngle() - Method in class JavaGrinders.spatial.MoveVector
Returns the angle of the move
getAngleFrequencies() - Method in class JavaGrinders.spatial.AngleVariable
creates and returns a variable containing the series of time distances between captures
getAngles() - Method in class JavaGrinders.spatial.CircularGraphPresenter
draws the frame for the circle and labels the angles
getAngles() - Method in class JavaGrinders.spatial.MoveVariable
returns an array of distances for the moves
getAnglesFromCenter() - Method in class JavaGrinders.spatial.CaptureVariable
returns the distances to one specific location
getAnimal(int) - Method in class JavaGrinders.spatial.Group
returns a specific Animal from the entire group
getANOVAResults(Variable) - Method in class JavaGrinders.NumberVariable
fills the ANOVA statistics for the variable
getANOVAResults(VariableOrganizer) - Method in class JavaGrinders.NumberVariable
fills the ANOVA statistics for a full factorial model
getAppletInfo() - Method in class JavaGrinders.Applets.FrequencyMatrixApplet
provided for future browsers to obtain development info
getAppletInfo() - Method in class JavaGrinders.Applets.HierarchyMatrixApplet
provided for future browsers to obtain development info
getArea() - Method in class JavaGrinders.SGTracker.SGPolygon
returns the area of the polygon in screen pixels
getArray() - Method in class JavaGrinders.Jama.Matrix
Access the internal two-dimensional array.
getArray(boolean) - Method in class JavaGrinders.Variable
returns an array of double values of the Vector
getArrayCopy() - Method in class JavaGrinders.Jama.Matrix
Copy the internal two-dimensional array.
getAutoCorrelationResults() - Method in class JavaGrinders.NumberVariable
obtains the Autocorrelation statistics for the variable
getBBSRanks() - Method in class JavaGrinders.InteractionTable
calculates a cardinal rank (BBS method) for each individual
getBinomial(int, int, double) - Static method in class JavaGrinders.Utilities.RHUtilities
returns the binomial probability for k outcomes out of N trials where the probability of getting that outcome is p
getBinomialApproxProbability(int, int, double) - Static method in class JavaGrinders.Utilities.RHUtilities
returns the one-tailed pobability for a binomial of k outcomes out of N trials where the probability of getting that outcome is p
getBinomialProbability(int, int, double) - Static method in class JavaGrinders.Utilities.RHUtilities
returns the one-tailed pobability for a binomial of k outcomes out of N trials where the probability of getting that outcome is p
getBinomialProbability2Tail(int, int, double) - Static method in class JavaGrinders.Utilities.RHUtilities
returns the one-tailed pobability for a binomial of k outcomes out of N trials where the probability of getting that outcome is p
getBlocked() - Method in class JavaGrinders.PeripheralsControl.Coordinator
Get the vlue of the sensor status
getBlockedStatus(boolean) - Method in class JavaGrinders.PeripheralsControl.Coordinator
Try to access the sensor.
getBlue(int, int) - Method in class JavaGrinders.SGTracker.ImagePixelsColor
returns the red value of a pixel
getBlueValue(int) - Static method in class JavaGrinders.SGTracker.ImagePixelsColor
returns the red value of a pixel
getbooleanValue(int) - Method in class JavaGrinders.Variable
returns the value stored at a given row of the Vector as a boolean
getBoydSilkRanks() - Method in class JavaGrinders.InteractionTable
calculates a cardinal ranks for stochastic transitivity Boyd and Silk (1983) for each individual
getByte(int, int) - Method in class JavaGrinders.SGTracker.ImagePixels
returns the value of a grayscale pixel as an int
getCapture(int) - Method in class JavaGrinders.spatial.CaptureVariable
returns the capture stored at a given row of the Vector
getCaptureVariable(int) - Method in class JavaGrinders.spatial.Group
returns a specific Animal from the Population
getCDifference(int, int) - Method in class JavaGrinders.SGTracker.ImagePixelsColor
get the absolute difference between two colors
getCDifference(Color, int) - Method in class JavaGrinders.SGTracker.ImagePixelsColor
get the absolute difference between two colors
getCDifference(Color, Color) - Method in class JavaGrinders.SGTracker.ImagePixelsColor
get the absolute difference between two colors
getCellValue(int, int) - Method in class JavaGrinders.Applets.CellMatrix
returns the double from one element of this matrix
getCellValue(int, int) - Method in class JavaGrinders.ContingencyTable
returns the double from one element of this matrix
getCenterLocation() - Method in class JavaGrinders.SGTracker.SGPolygon
finds the arithmetic center location of the object
getCenterLocation() - Method in class JavaGrinders.spatial.CaptureVariable
returns the average neighbor distance
getCenterLocations() - Method in class JavaGrinders.spatial.Group
returns a CaptureVariable with the arithmnetic centers for all members at any given time
getChannel() - Method in class JavaGrinders.PeripheralsControl.DeviceController
checks for all available serial ports
getChannel() - Method in class JavaGrinders.PeripheralsControl.LabProBasicInfo
Get the code of the LaPro channel
getChannelName() - Method in class JavaGrinders.PeripheralsControl.LabProBasicInfo
Get the name of the LaPro channel
getcharValue(int) - Method in class JavaGrinders.Variable
returns the instance of char stored at a given row in the Vector
getChiSquaredCriticalValue(double, int) - Static method in class JavaGrinders.Utilities.RHUtilities
Returns chi-squared probability for given value and degrees of freedom.
getChiSquaredProbability(double, int) - Static method in class JavaGrinders.Utilities.RHUtilities
Returns chi-squared probability for given value and degrees of freedom.
getCircularDescriptives() - Method in class JavaGrinders.spatial.AngleVariable
returns descriptive Circular Statistic for the variable using the currently selected set of rows
getColLabel(int) - Method in class JavaGrinders.ContingencyTable
returns a particular column label for the ContingencyTable
getColLabels() - Method in class JavaGrinders.ContingencyTable
returns column labels for the ContingencyTable
getColorInt(int, int) - Method in class JavaGrinders.SGTracker.ImagePixelsColor
returns the value of a 32bit RGBA color pixel as an int
getColSum(int) - Method in class JavaGrinders.ContingencyTable
returns the sum for a particular row of the table
getColSums() - Method in class JavaGrinders.ContingencyTable
returns the row sums of the table
getColumnArrayCopy(int) - Method in class JavaGrinders.Jama.Matrix
Make a one-dimensional column packed copy of the internal array.
getColumnDimension() - Method in class JavaGrinders.Jama.Matrix
Get column dimension.
getColumnPackedCopy() - Method in class JavaGrinders.Jama.Matrix
Make a one-dimensional column packed copy of the internal array.
getColumnPs() - Method in class JavaGrinders.ContingencyTable
returns the dimensions of the Table
getCombinations(int, int) - Static method in class JavaGrinders.Utilities.RHUtilities
 
getCombinedIDs(Variable) - Method in class JavaGrinders.Variable
returns a TreeMap containing all different values found in either this variable using the currently selected set of rows or in the selected rows of a second variable
getConfidenceInterval(double) - Method in class JavaGrinders.spatial.CircularDescriptives
reports the confidence interval
getConnect() - Method in class JavaGrinders.spatial.CaptureVariable
returns whether the Capture should be visually connected
getConnect() - Method in class JavaGrinders.spatial.SpatialVector
sets whether the move should be visually connected
getConsolidatedTimeLine(boolean) - Method in class JavaGrinders.spatial.Group
It coordinates times for all captures to conform to the same underlying timeline
getConstraint() - Method in class JavaGrinders.spatial.CaptureVariable
returns the spatial constraint for the population
getConstraint() - Method in class JavaGrinders.spatial.Group
returns the spatial constraint for the group
getConstraint() - Method in class JavaGrinders.spatial.SpatialModellingFramework
returns the arena linked to the framework
getContentPict() - Method in class JavaGrinders.PicturePresenter
returns the Pict used to fill the frame with content
getContingencyTableResults() - Method in class JavaGrinders.ContingencyTable
returns the results for a test of independence with expected frequencies calculated from observed
getContingencyTableResults(ContingencyTable) - Method in class JavaGrinders.ContingencyTable
returns the results for a test of independence with the provided expected values
getCorrelationResults(NumberVariable) - Method in class JavaGrinders.NumberVariable
fills the regression statistics for the variable with control over th intercept
getCorrMatrix(VariableOrganizer) - Method in class JavaGrinders.parametric.ParametricAnalyzer
calculates a correlation matrix for continuous, dependent variables.
getCorrMatrixJ(VariableOrganizer) - Method in class JavaGrinders.parametric.ParametricAnalyzer
calculates a correlation matrix for continuous, dependent variables.
getCrossTabulation(Variable, boolean, boolean) - Method in class JavaGrinders.Variable
returns a crosstabulation of values for two variables in form of a matrix
getCrossTabulation(Variable, TreeMap, TreeMap, boolean) - Method in class JavaGrinders.Variable
returns a crosstabulation of values for two variables in form of a matrix
getCurrentLocation() - Method in class JavaGrinders.spatial.CaptureVariable
returns the current location for the animal
getCurrentTime() - Method in class JavaGrinders.spatial.Animal
returns the current time stamp
getCustomColorRow(int) - Method in class JavaGrinders.Variable
returns the custom color for a given row
getD() - Method in class JavaGrinders.Jama.EigenvalueDecomposition
Return the block diagonal eigenvalue matrix
getDateValue(int) - Method in class JavaGrinders.spatial.TimeVariable
returns the time stored at a given row of the Vector as a String
getDescriptives() - Method in class JavaGrinders.spatial.AngleVariable
returns the descriptives for the variable
getDescriptives(boolean) - Method in class JavaGrinders.spatial.AngleVariable
returns the descriptives for the variable
getDescriptives() - Method in class JavaGrinders.Variable
returns the descriptives for the variable
getDeviceController(int) - Method in class JavaGrinders.PeripheralsControl.DeviceInterface
returns the device controller for a particular channel
getdf() - Method in class JavaGrinders.ContingencyTable
returns the degrees of freedom for the ContingencyTable
getDifferenceTable(ContingencyTable) - Method in class JavaGrinders.ContingencyTable
returns a matrix of dominance relationships between actor and receiver
getDirection() - Method in class JavaGrinders.Grid
returns the direction of the Axis
getDistance(Pixel) - Method in class JavaGrinders.SGTracker.Pixel
Reports the magnitude of this vector
getDistance(double, double) - Method in class JavaGrinders.spatial.AngleVariable
find the angle that is halfway between the two angles in a clockwise direction
getDistanceMatrix(int) - Method in class JavaGrinders.spatial.CaptureVariable
calculates a matrix of distances between all valid (i.e., selected and non-missing) locations
getDistances() - Method in class JavaGrinders.spatial.MoveVariable
returns an array of distances for the moves
getDistancesToLocation(SpatialVector) - Method in class JavaGrinders.spatial.CaptureVariable
returns the distances to one specific location
getDistancesToMean() - Method in class JavaGrinders.NumberVariable
returns a variable containing each values relative to its mean
getDominanceActivityIndex() - Method in class JavaGrinders.InteractionTable
calculates a dominance activity index for each individual
getDominanceIndex() - Method in class JavaGrinders.InteractionTable
calculates a dominance index for each individual
getDominanceMatrix() - Method in class JavaGrinders.ContingencyTable
returns a matrix of dominance relationships between actor and receiver
getdoubleArray(boolean) - Method in class JavaGrinders.Variable
returns an array of double values of the Vector
getDoublePivot() - Method in class JavaGrinders.Jama.LUDecomposition
Return pivot permutation vector as a one-dimensional double array
getdoubleValue(int) - Method in class JavaGrinders.Variable
returns the value stored at a given row of the Vector as a double
getDoWarnings() - Method in class JavaGrinders.VariableOrganizer
sets whether the VariableOrganizer reports warnings
getDurations() - Method in class JavaGrinders.spatial.MoveVariable
returns an array of speeds for the moves
getEarliestTimeRef() - Method in class JavaGrinders.spatial.Group
returns the earliest time reference for the group
getEndCapture() - Method in class JavaGrinders.spatial.CaptureVariable
returns the end capture for the animal
getEndCapture() - Method in class JavaGrinders.spatial.MoveVector
Returns the end capture of the move
getEndTime() - Method in class JavaGrinders.spatial.CaptureVariable
returns the start time for the animal
getEndTime() - Method in class JavaGrinders.spatial.MoveVector
Returns the end capture of the move
getEuclidianDistance(SpatialVector) - Method in class JavaGrinders.spatial.SpatialVector
Returns the straight-line distance between two points
getEventAvailable() - Method in class JavaGrinders.PeripheralsControl.Coordinator
Get the value of eventAvailable flag
getEventAvailFlag(boolean) - Method in class JavaGrinders.PeripheralsControl.Coordinator
Try to access eventAvailable flag.
getExpectedMatrix() - Method in class JavaGrinders.ContingencyTable
returns a matrix of expected values for a test of independence
getExpectedMatrix(boolean) - Method in class JavaGrinders.ContingencyTable
returns a matrix of expected values for a test of independence
getExpMatrixDia() - Method in class JavaGrinders.ContingencyTable
returns a matrix of expected values for a test of independence
getExpMatrixFromProbabilities() - Method in class JavaGrinders.ContingencyTable
returns a matrix of expected values for a test of independence
getExpMatrixNoDia() - Method in class JavaGrinders.ContingencyTable
returns a matrix of expected values for a test of independence if the diagonal is structurally zero
getExponent(double) - Static method in class JavaGrinders.Utilities.RHUtilities
returns the exponent in scientific notation
getFCriticalValue(double, int, int) - Static method in class JavaGrinders.Utilities.RHUtilities
Critical value for given probability of F-distribution.
getFile() - Static method in class JavaGrinders.Utilities.RHUtilities
user selects a file to open
getFirstXColumn() - Method in class JavaGrinders.VariableOrganizer
returns the first dependent (X) variable in the VariableOrganizer
getFirstYColumn() - Method in class JavaGrinders.VariableOrganizer
returns the first dependent (Y) variable in the VariableOrganizer
getfloatValue(int) - Method in class JavaGrinders.Variable
returns the value stored at a given row of the Vector as a float
getFProbability(double, int, int) - Static method in class JavaGrinders.Utilities.RHUtilities
Computes probability of F-ratio.
getFractalDimension() - Method in class JavaGrinders.spatial.CaptureVariable
returns the fractal dimension of the coordinates
getFractalDimension(double) - Method in class JavaGrinders.spatial.CaptureVariable
returns the fractal dimension of the coordinates
getFramedLocation(Point, int) - Method in class JavaGrinders.spatial.SpatialMapPresenter
frames a Capture scaled to the frame
getFrameRate() - Method in class JavaGrinders.SGTracker.SGRecordProc
returns the preferred framerate
getFrameRate() - Method in class JavaGrinders.SGTracker.SGTracker
returns the current frame rate
getFrequencies() - Method in class JavaGrinders.Variable
returns the frequencies for different instances of the variable using the currently selected set of rows up to the specified number of maxInstances
getFTukeyDeviates() - Method in class JavaGrinders.ContingencyTable
returns Freeman-Tukey deviates for a cell wise examination of the table
getGoodnessOfFitResults() - Method in class JavaGrinders.ContingencyTable
coordinates a replicated goodness of fit test
getGrayValue(int) - Static method in class JavaGrinders.SGTracker.ImagePixelsColor
returns the red value of a pixel
getGreen(int, int) - Method in class JavaGrinders.SGTracker.ImagePixelsColor
returns the red value of a pixel
getGreenValue(int) - Static method in class JavaGrinders.SGTracker.ImagePixelsColor
returns the red value of a pixel
getGrid() - Method in class JavaGrinders.Grid
returns the grid in the dimension
getGridInterval() - Method in class JavaGrinders.Grid
returns the grid interval for the axis
getGroup() - Method in class JavaGrinders.spatial.SpatialModellingFramework
returns the group of animals linked to the framework
getGroupDescriptives(Variable) - Method in class JavaGrinders.NumberVariable
returns the descriptives for the groups identified by X
getGroupDescriptives(Variable) - Method in class JavaGrinders.spatial.AngleVariable
lists the descriptives for the groups identified by X
getGroupDescriptives(Variable) - Method in class JavaGrinders.spatial.CaptureVariable
returns the descriptives for the groups identified by X
getGroupVarCovars(VariableOrganizer, Variable) - Method in class JavaGrinders.parametric.MultiVarAnalyzer
lists the results for a Regression Analysis
getH() - Method in class JavaGrinders.Jama.QRDecomposition
Return the Householder vectors
getHigh() - Method in class JavaGrinders.Grid
returns the high value
getHighliteColor() - Method in class JavaGrinders.Variable
returns the highlite color for the animal
getHighlitedRow(int) - Method in class JavaGrinders.Variable
returns whether a given row is currently highlited.
getHighlitedRow(int) - Method in class JavaGrinders.VariableOrganizer
returns whether a given row is currently highlited
getHighX() - Method in class JavaGrinders.spatial.GridSpace3D
returns the low x value for the Gridpsace3D
getHighY() - Method in class JavaGrinders.spatial.GridSpace3D
returns the low x value for the Gridpsace3D
getHighZ() - Method in class JavaGrinders.spatial.GridSpace3D
returns the low x value for the Gridpsace3D
getHodgesN() - Method in class JavaGrinders.spatial.AngleVariable
fills the descriptive circular statistics for the angle variable
getHodgesP(double) - Method in class JavaGrinders.spatial.AngleVariable
returns the angle where the maximum number of angles are clustered within a range of 180 degrees
getHomeRange_MinimumPolygon() - Method in class JavaGrinders.spatial.CaptureVariable
returns the average neighbor distance
getHotellingF(SquaresCrossproducts) - Method in class JavaGrinders.SquaresCrossproducts
returns Hotelling's Statistic for differences in mean angle
getHotellingFResults(Variable) - Method in class JavaGrinders.spatial.CaptureVariable
lists the results from an analysis of differences in mean angles for a variable of locations
getHotSpace() - Method in class JavaGrinders.PeripheralsControl.DeviceController
returns the current 3D space that is "hot"
getHotZones() - Method in class JavaGrinders.PeripheralsControl.DeviceInterface
returns the hot zones that are triggered by the interface
getHTilePosition() - Method in class JavaGrinders.SGTracker.TrackingJobSetting
gets the horizontal tile position for the tracking job
getIDMap() - Method in class JavaGrinders.Variable
returns a TreeMap containing all different values found in the variable using the currently selected set of rows
getIDs() - Method in class JavaGrinders.Variable
returns a TreeMap containing all different values found in the variable using the currently selected set of rows
getIDString(int) - Method in class JavaGrinders.Variable
returns a single entry for a key in the TreeMap as a String
getIDStrings() - Method in class JavaGrinders.Variable
returns the keys in the TreeMap as strings
getImagEigenvalues() - Method in class JavaGrinders.Jama.EigenvalueDecomposition
Return the imaginary parts of the eigenvalues
getIntAngleDeg(double) - Static method in class JavaGrinders.Utilities.RHUtilities
Returns an angle in Degrees (°) as an integer between 0 and 359
getInteractions(Variable) - Method in class JavaGrinders.Variable
returns a crosstabulation of values for two variables in form of an interaction matrix
getInterface() - Method in class JavaGrinders.PeripheralsControl.DeviceInterface
returns the interface
getInterpolatedCaptureAtTime(long) - Method in class JavaGrinders.spatial.MoveVector
Returns the interpolated capture of the move
getintValue(int) - Method in class JavaGrinders.Variable
returns the value stored at a given row of the Vector as an int
getJaccard(Variable) - Method in class JavaGrinders.Variable
returns the Manhattan proximity measure to another variable
getK(double) - Static method in class JavaGrinders.Utilities.RHUtilities
returns K for the Watson-Williams Test
getL() - Method in class JavaGrinders.Jama.CholeskyDecomposition
Return triangular factor.
getL() - Method in class JavaGrinders.Jama.LUDecomposition
Return lower triangular factor
getLastEvent() - Method in class JavaGrinders.PeripheralsControl.Coordinator
Get the last event information
getLastEventSize() - Method in class JavaGrinders.PeripheralsControl.Coordinator
Get the number of event items in the current event item queue
getLat() - Method in class JavaGrinders.spatial.PolarVector
retrieves the latitude component in radians
getLat() - Method in class JavaGrinders.spatial.SpatialVector
Return the latitudinal heading in radians.
getLatDeg() - Method in class JavaGrinders.spatial.PolarVector
retrieves the latitude component in degrees
getLatDeg() - Method in class JavaGrinders.spatial.SpatialVector
Return the latitudinal heading in degrees.
getLatestTimeRef() - Method in class JavaGrinders.spatial.Group
returns the latest time reference for the group
getLatLongAsDistances() - Method in class JavaGrinders.spatial.CaptureVariable
if the Captures are defined in longitude and latitude then this function converts these to distanced measures in meters using Haversines
getLength() - Method in class JavaGrinders.spatial.PolarVector
retrieves the length of the vector
getLength() - Method in class JavaGrinders.spatial.SpatialVector
Reports the magnitude of this vector
getLengthSquared() - Method in class JavaGrinders.spatial.SpatialVector
Reports the magnitude of this vector squared
getLinearityResults() - Method in class JavaGrinders.DominanceTable
returns results from a Test of Linearity.
getLineColor() - Method in class JavaGrinders.Variable
returns the line color for the variable
getLinRegressionResiduals(NumberVariable) - Method in class JavaGrinders.NumberVariable
fills the regression statistics for the variable with control over th intercept
getLinRegressionResults(NumberVariable) - Method in class JavaGrinders.NumberVariable
fills the regression statistics for the variable with control over the intercept
getLocationColor() - Method in class JavaGrinders.Variable
returns the location color for the variable
getLong() - Method in class JavaGrinders.spatial.PolarVector
retrieves the longitude component in radians
getLong() - Method in class JavaGrinders.spatial.SpatialVector
Return the longitudinal heading in radians.
getLongDeg() - Method in class JavaGrinders.spatial.PolarVector
retrieves the longitude component in degrees
getLongDeg() - Method in class JavaGrinders.spatial.SpatialVector
Return the longitudinal heading in degrees.
getlongValue(int) - Method in class JavaGrinders.Variable
returns the instance of long stored at a given row in the Vector
getLow() - Method in class JavaGrinders.Grid
returns the low x
getLowerWayParametricTermsSum(int) - Method in class JavaGrinders.parametric.RegressionResults
 
getLowX() - Method in class JavaGrinders.spatial.GridSpace3D
returns the low x value for the Gridpsace3D
getLowY() - Method in class JavaGrinders.spatial.GridSpace3D
returns the low x value for the Gridpsace3D
getLowZ() - Method in class JavaGrinders.spatial.GridSpace3D
returns the low x value for the Gridpsace3D
getManhattan(Variable) - Method in class JavaGrinders.Variable
returns the Manhattan proximity measure to another variable
getManhattanDistance(SpatialVector) - Method in class JavaGrinders.spatial.SpatialVector
Returns the straight-line distance between two points
getManhattanLength() - Method in class JavaGrinders.spatial.SpatialVector
Reports the magnitude of this vector
getMannWhitneyUProbability(double, int, int) - Static method in class JavaGrinders.Utilities.RHUtilities
returns the probability for a given Mann Whitney U statistic
getMantelP(ContingencyTable, double) - Method in class JavaGrinders.ContingencyTable
performs Mantel's test with number of permutations limited by MaxPermutations
getMantelZ(ContingencyTable) - Method in class JavaGrinders.ContingencyTable
calculate Mantel's Z statistic for a matrix and a second matrix passed in
getManWhitneyUResults(Variable, double) - Method in class JavaGrinders.NumberVariable
returns the results from an analysis of differences in mean angle distance from a hypothetical direction
getMatrix(int, int, int, int) - Method in class JavaGrinders.Jama.Matrix
Get a submatrix.
getMatrix(int[], int[]) - Method in class JavaGrinders.Jama.Matrix
Get a submatrix.
getMatrix(int, int, int[]) - Method in class JavaGrinders.Jama.Matrix
Get a submatrix.
getMatrix(int[], int, int) - Method in class JavaGrinders.Jama.Matrix
Get a submatrix.
getMatrixSize() - Method in class JavaGrinders.ContingencyTable
returns the dimensions of the Table
getMaxValue() - Method in class JavaGrinders.NumberVariable
returns the maximum value stored in the Vector as a double
getMeanDistanceToLocation(SpatialVector) - Method in class JavaGrinders.spatial.CaptureVariable
returns the average neighbor distance
getMeanValue() - Method in class JavaGrinders.NumberVariable
returns the average for values stored in the Vector as a double
getMedian() - Method in class JavaGrinders.spatial.AngleVariable
fills the descriptive circular statistics for the angle variable
getMilliSecondsValue(int) - Method in class JavaGrinders.spatial.TimeVariable
returns the time stored at a given row of the Vector in milliseconds
getMinNeighborDistance() - Method in class JavaGrinders.spatial.CaptureVariable
returns the minimum neighbor distance
getMinValue() - Method in class JavaGrinders.NumberVariable
returns the minimum value stored in the Vector as a double
getMissingRow(int) - Method in class JavaGrinders.Variable
returns whether a given row is currently missing.
getMissingRow(int) - Method in class JavaGrinders.VariableOrganizer
returns whether a given row is currently missing.
getMoveDescriptives() - Method in class JavaGrinders.spatial.MoveVariable
fills and returns the Descriptives
getMoveDistances() - Method in class JavaGrinders.spatial.CaptureVariable
creates and returns a variable containing the series of distances between captures
getMovementCutoff() - Method in class JavaGrinders.spatial.MoveDescriptives
returns the cutoff value for whether the object has moved or not
getMoves() - Method in class JavaGrinders.spatial.CaptureVariable
creates and returns a variable containing the series of absolute moves between captures
getMoves(boolean) - Method in class JavaGrinders.spatial.CaptureVariable
creates and returns a variable containing the series of absolute moves between captures
getMoveVector(int) - Method in class JavaGrinders.spatial.MoveVariable
returns the Move stored at a given row of the Vector
getMultLinRegressionResults(VariableOrganizer) - Method in class JavaGrinders.NumberVariable
fills the regression statistics for the variable with control over the intercept
getName() - Method in class JavaGrinders.ContingencyTable
returns the dimensions of the Table
getName() - Method in class JavaGrinders.Variable
returns the name of the Variable
getNCells() - Method in class JavaGrinders.ContingencyTable
returns the total number of cells for the ContingencyTable
getNCols() - Method in class JavaGrinders.ContingencyTable
returns the number of columns of the Table
getNControllers() - Method in class JavaGrinders.PeripheralsControl.DeviceInterface
returns the number of serial device controllers for the interface
getNDataRows() - Method in class JavaGrinders.DataFileParser
returns the number of valid data rows that were read from the text file
getNetDisplacement() - Method in class JavaGrinders.spatial.CaptureVariable
returns the time difference between first and last capture
getNetMove() - Method in class JavaGrinders.spatial.CaptureVariable
returns the time difference between first and last capture
getNetTime() - Method in class JavaGrinders.spatial.CaptureVariable
returns the time difference between first and last capture
getNextSelectXColumnIndex(int) - Method in class JavaGrinders.VariableOrganizer
returns the next selected column after a given column
getNextSelectYColumnIndex(int) - Method in class JavaGrinders.VariableOrganizer
returns the next selected column after a given column
getNGridUnits() - Method in class JavaGrinders.Grid
returns the number of grids in the dimension
getNIDs() - Method in class JavaGrinders.Variable
returns the number of different values present in the currently selected set of rows
getNInteractionTerms(int) - Static method in class JavaGrinders.Utilities.RHUtilities
returns the number of interaction terms that are part of the factorial model
getNMissingRows() - Method in class JavaGrinders.Variable
returns the number of missing rows in the currently selected set
getNMissingRows() - Method in class JavaGrinders.VariableOrganizer
returns the number of missing rows in the currently selected set
getNormalCriticalValue(double, int) - Static method in class JavaGrinders.Utilities.RHUtilities
Returns chi-squared probability for given value and degrees of freedom.
getNormalProbability(double) - Static method in class JavaGrinders.Utilities.RHUtilities
Returns the probability that the standardized normal variate Z (mean = 0, standard deviation = 1) is greater than z.
getNotes() - Method in class JavaGrinders.Variable
returns the Notes of the Variable
getNoZeroCellMatrix() - Method in class JavaGrinders.ContingencyTable
returns the values from the matrix with a constant of 0.25 added to each cell
getNRows() - Method in class JavaGrinders.ContingencyTable
returns the number of rows of the Table
getNRows() - Method in class JavaGrinders.DataFileParser
provides read access to private variable nRows
getNRows() - Method in class JavaGrinders.Variable
returns the number of rows in the Variable
getNRows() - Method in class JavaGrinders.VariableOrganizer
returns the number of rows for the VariableOrganizer
getNSelectRows() - Method in class JavaGrinders.Variable
returns the number of currently selected rows for the variable
getNSelectRows() - Method in class JavaGrinders.VariableOrganizer
returns the number of selected rows
getNTrackingJobSettings() - Method in class JavaGrinders.SGTracker.SGTracker
return the number of tracking jobs
getNTrackingJobSettings() - Method in class JavaGrinders.SGTracker.TrackingJobSettingsGroup
returns the length of the array of tracking jobs
getNumberDescriptives() - Method in class JavaGrinders.NumberVariable
fills the descriptive statistics for the variable and returns the results
getNUnits() - Method in class JavaGrinders.Grid
returns the number of units in the space
getNUseRows() - Method in class JavaGrinders.Variable
returns the number of usable rows in the currently selected set
getNUseRows() - Method in class JavaGrinders.VariableOrganizer
returns the number of usable rows in the currently selected set
getNValidRows() - Method in class JavaGrinders.Variable
returns the number of currently selected rows for the variable which do not have missing values
getNVariables() - Method in class JavaGrinders.VariableOrganizer
how many variables are under the control of this VariableOrganizer
getnWay(int) - Method in class JavaGrinders.parametric.RegressionResults
 
getNXVariables() - Method in class JavaGrinders.Analyzer
returns the number of independent variables in the Organizer
getNXVariables() - Method in class JavaGrinders.VariableOrganizer
how many X variables are under the control of this VariableOrganizer
getNYVariables() - Method in class JavaGrinders.Analyzer
returns the number of dependent variables in the Organizer
getNYVariables() - Method in class JavaGrinders.VariableOrganizer
how many Y variables are under the control of this VariableOrganizer
getOrdinalRanks() - Method in class JavaGrinders.DominanceTable
returns ordinal ranks for each individual
getOrdinalRanks() - Method in class JavaGrinders.InteractionTable
returns individual ordinal ranks from matrix of interactions between entities.
getOrganizer() - Method in class JavaGrinders.Analyzer
returns the VariableOrganizer instance
getOrganizer() - Method in class JavaGrinders.Variable
returns the VariableOrganizer for the Variable
getOrigin() - Method in class JavaGrinders.Grid
returns the origin of the dimension
getParameterInfo() - Method in class JavaGrinders.Applets.FrequencyMatrixApplet
provided for future browsers to list the type of parameters the applet needs to function properly and which options are available
getPause() - Method in class JavaGrinders.PeripheralsControl.Coordinator
Get the value of the first kind of pause flags
getPause2() - Method in class JavaGrinders.PeripheralsControl.Coordinator
Get the value of the second kind of pause flags
getPauseStatus() - Method in class JavaGrinders.PeripheralsControl.Coordinator
Try to access pause flags.
getPerimeter() - Method in class JavaGrinders.SGTracker.SGPolygon
returns the perimeter of the polygon in screen pixels
getPermutedTable(int[]) - Method in class JavaGrinders.ContingencyTable
gets a variant of the interactionTable with rows and columns switched with a given permutation
getPictParams() - Method in class JavaGrinders.PicturePresenter
returns a Pict to initially fill the frame with content
getPictRect() - Method in class JavaGrinders.PicturePresenter
returns a Pict to initially fill the frame with content
getPivot() - Method in class JavaGrinders.Jama.LUDecomposition
Return pivot permutation vector
getPixelMax(Rectangle) - Method in class JavaGrinders.SGTracker.ImagePixels
reports the max grayscale value for the current area of interest
getPixelValuesString(int, int) - Method in class JavaGrinders.SGTracker.ImagePixelsColor
obtains the pixel String values within a given area of the ImagePixels
getPixelX() - Method in class JavaGrinders.spatial.GridSpace3D
returns the number of x pixels in screen space
getPixelY() - Method in class JavaGrinders.spatial.GridSpace3D
returns the number of y pixels in screen space
getPixelZ() - Method in class JavaGrinders.spatial.GridSpace3D
returns the number of z pixels in screen space
getPlotBottom() - Method in class JavaGrinders.Presenter
returns the dimensions of the frame available for drawing
getPlotDimension() - Method in class JavaGrinders.Presenter
returns the dimensions of the frame available for drawing
getPlotLeft() - Method in class JavaGrinders.Presenter
returns the left/east dimensions of the frame available for drawing
getPlotRectangle() - Method in class JavaGrinders.Presenter
returns the dimensions of the frame available for drawing
getPlotRight() - Method in class JavaGrinders.Presenter
returns the dimensions of the frame available for drawing
getPlotTop() - Method in class JavaGrinders.Presenter
returns the top/north dimensions of the frame available for drawing
getPlotXYRatio() - Method in class JavaGrinders.spatial.MapDimensions
returns the width / height of the grid space
getPolarVector(SpatialVector) - Method in class JavaGrinders.spatial.SpatialVector
Returns the angle in degrees to another point.
getPortName() - Method in class JavaGrinders.PeripheralsControl.LabProBasicInfo
Get the serial port name
getpropMatrixDia() - Method in class JavaGrinders.ContingencyTable
returns a matrix of expected values for proportional fitting with diagonal present
getpropMatrixNoDia() - Method in class JavaGrinders.ContingencyTable
returns a matrix of expected values for proportional fitting with diagonal absent (see Bishop et al., 1975; following Freeman, 1992)
getProximity(Variable) - Method in class JavaGrinders.Variable
returns the proximity measure to another variable
getProximity(Variable, int) - Method in class JavaGrinders.Variable
returns the proximity measure to another variable
getPumping() - Method in class JavaGrinders.PeripheralsControl.Coordinator
Get the the value of the pump status
getPumpStatus() - Method in class JavaGrinders.PeripheralsControl.Coordinator
Try to access the pump.
getQ() - Method in class JavaGrinders.Jama.QRDecomposition
Generate and return the (economy-sized) orthogonal factor
getR() - Method in class JavaGrinders.Jama.QRDecomposition
Return the upper triangular factor
getRandomValue() - Method in class JavaGrinders.Variable
returns the object stored at a randomly selected row of the Vector
getRange() - Method in class JavaGrinders.NumberVariable
returns the minimum value stored in the Vector as a double
getRanks() - Method in class JavaGrinders.NumberVariable
return the ranks for the values in this array of the currently selected subset
getRaoSpacing() - Method in class JavaGrinders.spatial.AngleVariable
returns Rao's Spacing Statistic for the variable using the currently selected set of rows.
getRaoSpacingCriticalValue(double, int) - Static method in class JavaGrinders.Utilities.RHUtilities
returns the critical value of the Rao spacing statistic
getRaoSpacingProbability(double, int) - Static method in class JavaGrinders.Utilities.RHUtilities
returns the probability for Rao's Spacing Statistic for the variable using the currently selected set of rows.
getRayleighR() - Method in class JavaGrinders.spatial.AngleVariable
returns Rayleigh's R Statistic for the variable using the currently selected set of rows
getRayleighZ() - Method in class JavaGrinders.spatial.AngleVariable
returns Rayleigh's Z Statistic for the variable using the currently selected set of rows
getRealEigenvalues() - Method in class JavaGrinders.Jama.EigenvalueDecomposition
Return the real parts of the eigenvalues
getRecordProc() - Method in class JavaGrinders.SGTracker.SGTracker
returns the controller for serial devices
getRect() - Method in class JavaGrinders.SGTracker.TrackingJobSetting
sets the analysis rectangle for the tracking job
getRed(int, int) - Method in class JavaGrinders.SGTracker.ImagePixelsColor
returns the red value of a pixel
getRedValue(int) - Static method in class JavaGrinders.SGTracker.ImagePixelsColor
returns the red value of a pixel
getRelayPhidget() - Method in class JavaGrinders.PeripheralsControl.DeviceInterface
returns a relay interface from the set - if it exists
getRelMoveVector() - Method in class JavaGrinders.spatial.MoveVector
Returns the difference vector of the move relative to the previous heading direction
getReplicatedGoodnessOfFitResults(Variable) - Method in class JavaGrinders.ReplicatedGAnalyzer
reports a replicated goodness of fit test for the ContingencyTable
getRoundness() - Method in class JavaGrinders.SGTracker.SGPolygon
returns the roundness factor of the polygon as object perimeter squared divided by object area.
getRowDimension() - Method in class JavaGrinders.Jama.Matrix
Get row dimension.
getRowLabel(int) - Method in class JavaGrinders.ContingencyTable
returns a particular row label for the ContingencyTable
getRowLabels() - Method in class JavaGrinders.ContingencyTable
returns row labels for the ContingencyTable
getRowOrder() - Method in class JavaGrinders.Variable
returns the Notes of the Variable
getRowOrderRow(int) - Method in class JavaGrinders.Variable
returns whether a given row is currently selected.
getRowPackedCopy() - Method in class JavaGrinders.Jama.Matrix
Make a one-dimensional row packed copy of the internal array.
getRowSum(int) - Method in class JavaGrinders.ContingencyTable
returns the sum for a particular row of the table
getRowSums() - Method in class JavaGrinders.ContingencyTable
returns the row sums of the table
getS() - Method in class JavaGrinders.Jama.SingularValueDecomposition
Return the diagonal matrix of singular values
getSameXYScale() - Method in class JavaGrinders.spatial.GridSpace3D
x and y Axis measures are at the same scale
getSameXYZScale() - Method in class JavaGrinders.spatial.GridSpace3D
x, y and z Axis measures are at the same scale
getSamplingTime() - Method in class JavaGrinders.PeripheralsControl.LabProBasicInfo
Get the sampling time
getScaledPoint(GridSpace3D) - Method in class JavaGrinders.spatial.SpatialVector
Scales a single location to a frame's x and y scale values
getSDValue() - Method in class JavaGrinders.NumberVariable
returns the average for values stored in the Vector as a double
getSecondsValue(int) - Method in class JavaGrinders.spatial.TimeVariable
returns the time stored at a given row of the Vector in seconds
getSecondsVariable() - Method in class JavaGrinders.spatial.TimeVariable
returns the variable with time in seconds
getSelectCell(int, int) - Method in class JavaGrinders.VariableOrganizer
returns whether a given cell of the datamatrix is currently selected
getSelectRow(int) - Method in class JavaGrinders.Variable
returns whether a given row is currently selected.
getSelectRow(int) - Method in class JavaGrinders.VariableOrganizer
returns whether a given row is currently selected
getSerialPorts() - Method in class JavaGrinders.PeripheralsControl.SerialDeviceController
checks for all serial ports is being used by somebody else
getSerialPorts() - Method in class JavaGrinders.PeripheralsControl.SerialPortLister
 
getServoPhidget() - Method in class JavaGrinders.PeripheralsControl.DeviceInterface
returns a servo interface from the set - if it exists
getSign(double) - Static method in class JavaGrinders.Utilities.RHUtilities
Examines a double and returns its sign as an integer
getSignedRank(double) - Method in class JavaGrinders.NumberVariable
returns the signed ranks of distances to the specified value
getSignedRankW(double, boolean) - Method in class JavaGrinders.NumberVariable
fills the one-tailed sum of signed ranks
getSignedRankWProbability(double) - Method in class JavaGrinders.NumberVariable
returns the one-tailed robability of obtaining this Signed Rank W or greater
getSingularValues() - Method in class JavaGrinders.Jama.SingularValueDecomposition
Return the one-dimensional array of singular values
getSlope() - Method in class JavaGrinders.parametric.RegressionResults
returns the slope for the Regression formula
getSpace() - Method in class JavaGrinders.Grid
returns the dimension of the grid space
getSpatialDescriptives() - Method in class JavaGrinders.spatial.CaptureVariable
fills the descriptive statistics for the variable and returns the results
getSpatialVector(int) - Method in class JavaGrinders.spatial.CaptureVariable
returns the capture stored at a given row of the Vector
getSpatialVector(SpatialVector) - Method in class JavaGrinders.spatial.SpatialVector
Returns the angle in degrees to another point.
getSpeed(Capture) - Method in class JavaGrinders.spatial.Capture
returns the speed of travel between this and another capture as distance/second
getSpeed() - Method in class JavaGrinders.spatial.MoveVector
Returns the speed for the move
getSpeeds() - Method in class JavaGrinders.spatial.CaptureVariable
creates and returns a variable containing the series of speeds between captures
getSpeeds() - Method in class JavaGrinders.spatial.MoveVariable
returns an array of speeds for the moves
getSquaredEuclidianDistance(SpatialVector) - Method in class JavaGrinders.spatial.SpatialVector
Returns the straight-line distance between two points
getSquEuclidian(Variable) - Method in class JavaGrinders.Variable
returns the Euclidian proximity measure to another variable
getSSCP(NumberVariable) - Method in class JavaGrinders.NumberVariable
returns the sums of squares and crossproducts for the variable
getSSCP() - Method in class JavaGrinders.spatial.CaptureVariable
returns the sums of squares and crossproducts for the variable
getSSCPMatrix(VariableOrganizer) - Method in class JavaGrinders.parametric.ParametricAnalyzer
calculates a variance/covariance matrix for continuous, dependent variables.
getSSCPMatrixJ(VariableOrganizer) - Method in class JavaGrinders.parametric.ParametricAnalyzer
calculates a correlation matrix for continuous, dependent variables.
getStartCapture() - Method in class JavaGrinders.spatial.CaptureVariable
returns the start capture for the animal
getStartCapture() - Method in class JavaGrinders.spatial.MoveVector
Returns the start capture of the move
getStartTime() - Method in class JavaGrinders.spatial.CaptureVariable
returns the start time for the animal
getStartTime() - Method in class JavaGrinders.spatial.MoveVector
Returns the start capture of the move
getString() - Method in class JavaGrinders.Applets.Cell
returns the cell value as a formatted String or the label string
getStringArray(boolean) - Method in class JavaGrinders.Variable
returns the object stored at a given row of the Vector as a String
getStringValue(int) - Method in class JavaGrinders.spatial.CaptureVariable
returns the capture stored at a given row of the Vector as a String
getStringValue(int) - Method in class JavaGrinders.spatial.MoveVariable
returns the value from a given row in the array as a String object
getStringValue(int) - Method in class JavaGrinders.Variable
returns the object stored at a given row of the Vector as a String
getSumValue() - Method in class JavaGrinders.NumberVariable
returns the average for values stored in the Vector as a double
getTable() - Method in class JavaGrinders.ContingencyAnalyzer
returns the crosstabulation (i.e., frequency) table
getTablePs() - Method in class JavaGrinders.ContingencyTable
returns the dimensions of the Table
getTauKr() - Method in class JavaGrinders.ContingencyTable
organize a TauKr test for a correlation between actor and receiver matrix
getTauKrP(double) - Method in class JavaGrinders.ContingencyTable
performs the Kr test with number of permutations limited by MaxPermutations
getTCriticalValue(double, int) - Static method in class JavaGrinders.Utilities.RHUtilities
Critical value for given probability of F-distribution.
getTimeBetweenCaptures(Capture) - Method in class JavaGrinders.spatial.Capture
returns the difference in timestamps for this and another capture
getTimeBetweenCaptures() - Method in class JavaGrinders.spatial.MoveVector
Returns the time the move took
getTimeBetweenFrames() - Method in class JavaGrinders.spatial.CaptureVariable
creates and returns a variable containing the series of time distances between captures
getTimeMilliSecs() - Method in class JavaGrinders.spatial.Capture
returns the timestamp for this capture
getTimeRef() - Method in class JavaGrinders.spatial.Capture
returns the timestamp for this capture
getTimeRefs() - Method in class JavaGrinders.spatial.CaptureVariable
creates and returns a variable containing the times for these captures
getTimes(int) - Method in class JavaGrinders.SGTracker.SGTracker
return the Vector for the times of a given track job
getTimes() - Method in class JavaGrinders.spatial.CaptureVariable
creates and returns a variable containing the times for these captures
getTimeSecs() - Method in class JavaGrinders.spatial.Capture
returns the timestamp for this capture
getTimeString() - Method in class JavaGrinders.spatial.Capture
returns the timestamp for this capture as a string
getTimeSum() - Method in class JavaGrinders.spatial.MoveVariable
returns the amount of time covered by the moves
getTinyStepPath(int) - Method in class JavaGrinders.spatial.CaptureVariable
traces the current selected path in small increments
getTitle() - Method in class JavaGrinders.PeripheralsControl.LabProSetupPanel
Get the title of this panel
getTotalsMatrix() - Method in class JavaGrinders.ContingencyTable
returns a matrix in which cells from actor and receiver section of the ContingencyTable have been summed into a total cell value
getTotalSum() - Method in class JavaGrinders.ContingencyTable
returns the sum for a particular row of the table
getTProbability(double, double) - Static method in class JavaGrinders.Utilities.RHUtilities
returns the one-tailed probability for a t value such as this or greater under the normal Curve (t Distribution) starting at positive infinity with a mean of zero and a variance or 1 Algorithn AS 3 Appl.
getTProbability2Tail(double, double) - Static method in class JavaGrinders.Utilities.RHUtilities
returns the two-tailed probability for a t value such as this or greater under the normal Curve (t Distribution) starting at positive infinity with a mean of zero and a variance of 1 Algorithn AS 3 Appl.
getTracker() - Method in class JavaGrinders.PeripheralsControl.DeviceInterface
returns the tracker that controls the interface
getTrackingJobSetting(int) - Method in class JavaGrinders.SGTracker.SGTracker
return one tracking job
getTrackingJobSetting(int) - Method in class JavaGrinders.SGTracker.TrackingJobSettingsGroup
returns a specific tracking jobs
getTransitions() - Method in class JavaGrinders.Variable
returns the transitions among consecutive values in form of a matrix
gettTestResults(double) - Method in class JavaGrinders.NumberVariable
obtains the t-Test results for the variable
gettValue(double) - Method in class JavaGrinders.NumberVariable
returns the average for values stored in the Vector as a double
getU() - Method in class JavaGrinders.Jama.LUDecomposition
Return upper triangular factor
getU() - Method in class JavaGrinders.Jama.SingularValueDecomposition
Return the left singular vectors
getUseRow(int) - Method in class JavaGrinders.Variable
returns whether a given row can be used.
getUseRow(int) - Method in class JavaGrinders.VariableOrganizer
returns whether a given row can be used.
getV() - Method in class JavaGrinders.Jama.EigenvalueDecomposition
Return the eigenvector matrix
getV() - Method in class JavaGrinders.Jama.SingularValueDecomposition
Return the right singular vectors
getV(Double) - Method in class JavaGrinders.spatial.AngleVariable
returns V for the Modified Rayleigh Test for Uniformity vs.
getValue() - Method in class JavaGrinders.Applets.Cell
returns the double value for the cell
getValue(int, int) - Method in class JavaGrinders.SGTracker.ImagePixels
returns the value of a grayscale pixel as an int
getValue(int, int) - Method in class JavaGrinders.SGTracker.ImagePixelsColor
returns the value of a grayscale pixel as an int
getValue(int) - Method in class JavaGrinders.Variable
returns the object stored at a given row of the Vector
getVarCovarMatrix(VariableOrganizer) - Method in class JavaGrinders.parametric.ParametricAnalyzer
calculates a variance/covariance matrix for continuous, dependent variables.
getVarCovarMatrixJ(VariableOrganizer) - Method in class JavaGrinders.parametric.ParametricAnalyzer
calculates a correlation matrix for continuous, dependent variables.
getVariable(int) - Method in class JavaGrinders.VariableOrganizer
returns a particular variable designated by a reference number, this corresponds to the zero-based order in which variables were registered with the VariableOrganizer.
getVariable(String) - Method in class JavaGrinders.VariableOrganizer
returns a particular variable designated by a variable name
getVariableDesignRole() - Method in class JavaGrinders.Variable
returns the variable design role
getVariableDesignRole(int) - Method in class JavaGrinders.VariableOrganizer
returns whether a given column is currently chosen as X, Y, label or not selected
getVariableDesignRoleString() - Method in class JavaGrinders.Variable
returns the variable design role as a character string
getVariableFormat() - Method in class JavaGrinders.Variable
returns the variable format
getVariableIndex(String) - Method in class JavaGrinders.VariableOrganizer
returns the index of a particular variable designated by a variable name
getVariableNames() - Method in class JavaGrinders.VariableOrganizer
how many Y variables are under the control of this VariableOrganizer
getVariablePosition(Variable) - Method in class JavaGrinders.VariableOrganizer
returns the position in the vector for a particular variable this corresponds to the zero-based order in which variables were registered with the VariableOrganizer.
getVariableType() - Method in class JavaGrinders.Variable
returns the variable type
getVarianceValue() - Method in class JavaGrinders.NumberVariable
returns the average for values stored in the Vector as a double
getVersion() - Static method in class JavaGrinders.JavaGrinders
 
getVTilePosition() - Method in class JavaGrinders.SGTracker.TrackingJobSetting
gets the horizontal tile position for the tracking job
getWatsonU2Probability(double, int, int) - Static method in class JavaGrinders.Utilities.RHUtilities
returns the probability for a given Watson U2 statistic
getWatsonU2Results(Variable) - Method in class JavaGrinders.spatial.AngleVariable
returns the results from an analysis of differences in mean angles for a variable of locations
getWatsonWilliamsFResults(Variable) - Method in class JavaGrinders.spatial.AngleVariable
returns the results from an analysis of differences in mean angles for a variable of locations
getWheelerWResults(Variable) - Method in class JavaGrinders.spatial.AngleVariable
returns the results from an analysis of differences in mean angles for a variable of locations
getX() - Method in class JavaGrinders.spatial.SpatialVector
retrieves the x component
getXs(int) - Method in class JavaGrinders.SGTracker.SGTracker
return the Vector for x coordinates
getXs() - Method in class JavaGrinders.spatial.CaptureVariable
returns the x coordinates as a Vector
getXScale() - Method in class JavaGrinders.SGTracker.SGPathPlotter
returns the x scale for plotting the coordinates
getXScale() - Method in class JavaGrinders.SGTracker.SGVideoComponent
returns the x scale for plotting the coordinates
getXScale() - Method in class JavaGrinders.spatial.GridSpace3D
returns the scale of the x Axis
getXVariable() - Method in class JavaGrinders.Analyzer
returns the independent variable of the Organizer
getXY() - Method in class JavaGrinders.spatial.SpatialVector
Scales a single location to a frame's x and y scale values
getXYBorders() - Method in class JavaGrinders.spatial.GridSpace3D
returns the Rectangle bordering the Gridspace
getXYRatio() - Method in class JavaGrinders.spatial.GridSpace3D
returns the ratio of x vs y dimensions
getXZRatio() - Method in class JavaGrinders.spatial.GridSpace3D
returns the ratio of x vs z dimensions
getY() - Method in class JavaGrinders.spatial.SpatialVector
retrieves the y component
getYs(int) - Method in class JavaGrinders.SGTracker.SGTracker
return the Vector for y coordinates
getYs() - Method in class JavaGrinders.spatial.CaptureVariable
returns the x coordinates as a Vector
getYScale() - Method in class JavaGrinders.SGTracker.SGPathPlotter
returns the x scale for plotting the coordinates
getYScale() - Method in class JavaGrinders.SGTracker.SGVideoComponent
returns the x scale for plotting the coordinates
getYScale() - Method in class JavaGrinders.spatial.GridSpace3D
returns the scale of the y Axis
getYVariable() - Method in class JavaGrinders.Analyzer
returns the dependent variable of the Organizer
getYVariableNames() - Method in class JavaGrinders.Analyzer
returns the matrix of all continuous, dependent variables.
getZ() - Method in class JavaGrinders.spatial.SpatialVector
retrieves the z component
getZeroCells() - Method in class JavaGrinders.ContingencyTable
returns the number of empty cells for the ContingencyTable
getZs(int) - Method in class JavaGrinders.SGTracker.SGTracker
return the Vector for z coordinates
getZs() - Method in class JavaGrinders.spatial.CaptureVariable
returns the x coordinates as a Vector
getZScale() - Method in class JavaGrinders.spatial.GridSpace3D
returns the scale of the z Axis
getzTransform() - Method in class JavaGrinders.NumberVariable
returns a variable containing each values relative to its mean
gExporter - Variable in class JavaGrinders.SGTracker.SGTracker
 
GoodnessOfFitResults - Class in JavaGrinders
holds a set of results obtained for an analysis of a contingency table
GoodnessOfFitResults(int, int, double[], int) - Constructor for class JavaGrinders.GoodnessOfFitResults
Standard constructor
Grid - Class in JavaGrinders
provides the interface for obtaining descriptive statistics from continuous variables.
Grid(double, double) - Constructor for class JavaGrinders.Grid
standard constructor for the Grid class with minimum and maximum values provided
Grid - Variable in class JavaGrinders.Grid
 
GridSpace3D - Class in JavaGrinders.spatial
provides the interface for obtaining descriptive statistics from continuous variables.
GridSpace3D() - Constructor for class JavaGrinders.spatial.GridSpace3D
empty constructor for the GridSpace3D class with coordinates provided
GridSpace3D(double, double, double, double) - Constructor for class JavaGrinders.spatial.GridSpace3D
constructor for the GridSpace3D class with x and y coordinates provided
GridSpace3D(double, double, double, double, double, double) - Constructor for class JavaGrinders.spatial.GridSpace3D
standard constructor for the GridSpace3D class with coordinates provided
Group - Class in JavaGrinders.spatial
coordinates a group of animals
Group() - Constructor for class JavaGrinders.spatial.Group
Standard constructor for the Group class
Group(Constraint) - Constructor for class JavaGrinders.spatial.Group
Standard constructor for the Group class
Group(GridSpace3D) - Constructor for class JavaGrinders.spatial.Group
Standard constructor for the Group class
GroupAnalyzer - Class in JavaGrinders
Analyzer class - sets up a generic data analyzer, * it does not do much aside from planting the general roots for analyzers
GroupAnalyzer(VariableOrganizer) - Constructor for class JavaGrinders.GroupAnalyzer
Standard constructor
gRowHighlitedState - Variable in class JavaGrinders.VariableOrganizer
 
gRowMissingState - Variable in class JavaGrinders.VariableOrganizer
 
gRowSaveSelectedState - Variable in class JavaGrinders.VariableOrganizer
 
gRowSelectedState - Variable in class JavaGrinders.VariableOrganizer
 
growToInclude(Constraint) - Method in class JavaGrinders.spatial.GridSpace3D
returns the constraint that includes the new one as well.
GValue - Variable in class JavaGrinders.ContTableResults
 
GValueCorr - Variable in class JavaGrinders.ContTableResults
 
GValueProb - Variable in class JavaGrinders.ContTableResults
 

H

HALF - Variable in class JavaGrinders.Applets.FrequencyMatrixApplet
 
handleQuit() - Method in class JavaGrinders.DataTablePresenter
handles a quit event
handleQuit() - Method in class JavaGrinders.PicturePresenter
handles a quit event
handleQuit() - Method in class JavaGrinders.Presenter
handles a quit event
hasColorLabel - Static variable in class JavaGrinders.SGTracker.SGTracker
 
hasDarkObject - Static variable in class JavaGrinders.SGTracker.SGTracker
 
hasLightObject - Static variable in class JavaGrinders.SGTracker.SGTracker
 
HierarchyAnalyzer - Class in JavaGrinders
coordinates the analysis of contingency tables in an application.
HierarchyAnalyzer(VariableOrganizer) - Constructor for class JavaGrinders.HierarchyAnalyzer
Standard constructor using a VariableOrganizer and an InteractionTable
HierarchyAnalyzer(InteractionTable) - Constructor for class JavaGrinders.HierarchyAnalyzer
Standard constructor using a VariableOrganizer and an InteractionTable
HierarchyMatrixApplet - Class in JavaGrinders.Applets
manages the graphical user interface for the applet that implements analyses of a special case of crosstabulation frequency tables - a table of interactions between individual entities.
HierarchyMatrixApplet() - Constructor for class JavaGrinders.Applets.HierarchyMatrixApplet
 
highliteSelectedRows() - Method in class JavaGrinders.Variable
highlites the selected rows only
highliteSelectedRows(boolean) - Method in class JavaGrinders.Variable
highlites all selected rows
HistogramPresenter - Class in JavaGrinders
a presenter for a spatial map that is placed within a scrollpane within a frame.
HistogramPresenter(String) - Constructor for class JavaGrinders.HistogramPresenter
Standard constructor for the HistogramPresenter class
HistogramPresenter(String, NumberVariable) - Constructor for class JavaGrinders.HistogramPresenter
Standard constructor for the HistogramPresenter class
HodgesMeanN - Variable in class JavaGrinders.spatial.CircularDescriptives
 
HodgesMeanNProb - Variable in class JavaGrinders.spatial.CircularDescriptives
 
HodgesN - Variable in class JavaGrinders.spatial.CircularDescriptives
 
HodgesNProb - Variable in class JavaGrinders.spatial.CircularDescriptives
 
howManyColumns() - Method in class JavaGrinders.DataFileParser
provides read access to private variable nCols
howManyPossiblePermutations() - Method in class JavaGrinders.ContingencyTable
calculates the number of possible permutations
hypoPs - Variable in class JavaGrinders.GoodnessOfFitResults
 
hypot(double, double) - Static method in class JavaGrinders.Utilities.RHUtilities
returns the sqrt(a^2 + b^2) without under/overflow
hypot(double, double, double) - Static method in class JavaGrinders.Utilities.RHUtilities
returns the sqrt(a^2 + b^2 + c^2)

I

identity(int, int) - Static method in class JavaGrinders.Jama.Matrix
Generate identity matrix
IDLE - Static variable in class JavaGrinders.SGTracker.SGTracker
 
IDMap - Variable in class JavaGrinders.Descriptives
 
ImagePixels - Class in JavaGrinders.SGTracker
a memory structure that holds information on a 2D array of pixels unfolded into a 1D array.
ImagePixels(int, int) - Constructor for class JavaGrinders.SGTracker.ImagePixels
constructor for the ImagePixels class.
ImagePixelsColor - Class in JavaGrinders.SGTracker
a memory structure that holds individual pixel information
ImagePixelsColor(int, int) - Constructor for class JavaGrinders.SGTracker.ImagePixelsColor
constructor for the ImagePixels class.
in - Variable in class JavaGrinders.PeripheralsControl.SerialDeviceController
 
incrementCellValue(int, int) - Method in class JavaGrinders.ContingencyTable
increments a single cell for this matrix by one
init() - Method in class JavaGrinders.Applets.FrequencyMatrixApplet
“init” overrides “super.init()” and initializes the applet by: 1.
init() - Method in class JavaGrinders.Applets.HierarchyMatrixApplet
initializes the applet
IntegerVariable - Class in JavaGrinders
handles a variable of Doubles that represent ordinal data.
IntegerVariable(String, VariableOrganizer) - Constructor for class JavaGrinders.IntegerVariable
Standard constructor for the IntegerVariable class using a VariableOrganizer
InteractionTable - Class in JavaGrinders
contains a crosstabulation table of interactions between individuals and performs a variety of statistics on it, including dominance measures, reciprocity, etc.
InteractionTable(int) - Constructor for class JavaGrinders.InteractionTable
standard constructor for the InteractionTable class
InteractionTable(ContingencyTable) - Constructor for class JavaGrinders.InteractionTable
standard constructor for the InteractionTable class
InteractionTable(int, double[][]) - Constructor for class JavaGrinders.InteractionTable
standard constructor for the InteractionTable class
intsPerRow - Variable in class JavaGrinders.SGTracker.ImagePixels
 
intsPerRow - Variable in class JavaGrinders.SGTracker.SGRecordProc
 
intToHex(int) - Static method in class JavaGrinders.Utilities.RHUtilities
Utility method to convert an int into kex, padded to two characters.
invalidDescriptives() - Method in class JavaGrinders.NumberVariable
descriptive stats need to be updated
invalidDescriptives() - Method in class JavaGrinders.Variable
descriptive stats need to be updated
inverse() - Method in class JavaGrinders.Jama.Matrix
Matrix inverse or pseudoinverse
invertSelectedRows() - Method in class JavaGrinders.Variable
invert select rows
invertTable() - Method in class JavaGrinders.ContingencyTable
inverts the table with rows to colums and colums to rows
invertTable() - Method in class JavaGrinders.DataTable
inverts the table with rows to colums and colums to rows
is3D - Variable in class JavaGrinders.SGTracker.SGTracker
 
isAngleType() - Method in class JavaGrinders.Variable
returns whether the variable is of type ANGLES
isColorSet - Variable in class JavaGrinders.SGTracker.ImagePixelsColor
 
isConsole() - Method in class JavaGrinders.Stringer
returns whether the console is the destination
isContinuousType() - Method in class JavaGrinders.Variable
returns whether the variable is of type CONTINUOUS
isEven(int) - Static method in class JavaGrinders.Utilities.RHUtilities
returns whether the integer is an even number
isFullRank() - Method in class JavaGrinders.Jama.QRDecomposition
Is the matrix full rank?
isGraySet - Variable in class JavaGrinders.SGTracker.ImagePixels
 
isIn(Capture) - Method in class JavaGrinders.PeripheralsControl.DeviceController
returns whether the provided capture is in the hot space
isLocationType() - Method in class JavaGrinders.Variable
returns whether the variable is of type LOCATIONS
isLocked() - Method in class JavaGrinders.Variable
returns whether a variable is locked for further selections, modifications, etc.
isLowerWay(int, int) - Method in class JavaGrinders.parametric.RegressionResults
 
isMatchingMatrix(ContingencyTable) - Method in class JavaGrinders.ContingencyTable
is this matrix the same as the one provided?
isNominalType() - Method in class JavaGrinders.Variable
returns whether the variable is of type NOMINAL
isNonsingular() - Method in class JavaGrinders.Jama.LUDecomposition
Is the matrix nonsingular?
isnWay(int, int) - Method in class JavaGrinders.parametric.RegressionResults
 
isOdd(int) - Static method in class JavaGrinders.Utilities.RHUtilities
returns whether the integer is an even number
isOrdinalType() - Method in class JavaGrinders.Variable
returns whether the variable is of type ORDINAL
isOwnedSerialPort(String) - Static method in class JavaGrinders.PeripheralsControl.SerialDeviceController
checks whether serial port is being used by somebody else
isOwnedSerialPort(String) - Static method in class JavaGrinders.PeripheralsControl.SerialPortLister
checks whether serial port is being used by somebody else
isSPD() - Method in class JavaGrinders.Jama.CholeskyDecomposition
Is the matrix symmetric and positive definite?
isSquare() - Method in class JavaGrinders.ContingencyTable
is matrix square?
isSquare - Variable in class JavaGrinders.ContTableResults
 
isXVariable() - Method in class JavaGrinders.Variable
is the variable selected as an independent variable
isYVariable() - Method in class JavaGrinders.Variable
is the variable selected as a dependent variable
itemsAsDistanceMatrix(int) - Method in class JavaGrinders.VariableOrganizer
returns a proximity matrix for the variables in the variableorganizer which have been selected as dependent variables (i.e., VariableDesignRole.Y)
iterated - Variable in class JavaGrinders.ContingencyTable
 
iterated - Variable in class JavaGrinders.ContTableResults
 
itsAnalysisRectBottom - Variable in class JavaGrinders.SGTracker.TrackingJobSetting
 
itsAnalysisRectRight - Variable in class JavaGrinders.SGTracker.TrackingJobSetting
 
itsAnalysisRects - Variable in class JavaGrinders.SGTracker.SGTracker
 
itsBounds - Variable in class JavaGrinders.SGTracker.ImagePixels
 
itsBytesPerPixel - Variable in class JavaGrinders.SGTracker.ImagePixels
 
itsColorLabel - Variable in class JavaGrinders.SGTracker.TrackingJobSetting
 
itsColors - Variable in class JavaGrinders.SGTracker.ImagePixelsColor
 
itsDataSpace - Variable in class JavaGrinders.spatial.MapDimensions
 
itsDescriptives - Variable in class JavaGrinders.Variable
 
itsDeviceInterface - Variable in class JavaGrinders.PeripheralsControl.DeviceController
 
itsDeviceInterface - Variable in class JavaGrinders.SGTracker.SGTracker
 
itsFocusPixelValue - Variable in class JavaGrinders.SGTracker.ImagePixels
 
itsGrays - Variable in class JavaGrinders.SGTracker.ImagePixels
 
itsHighlitedColor - Variable in class JavaGrinders.Variable
 
itsHotRects - Variable in class JavaGrinders.SGTracker.TrackingJobSetting
 
itsHypothesisPs - Variable in class JavaGrinders.ContingencyAnalyzer
 
itsIDs - Variable in class JavaGrinders.Descriptives
 
itsImage - Variable in class JavaGrinders.SGTracker.ImagePixelsColor
 
itsImage - Variable in class JavaGrinders.SGTracker.SGVideoComponent
 
itsImage_D - Variable in class JavaGrinders.SGTracker.SGRecordProc
 
itsImage_L - Variable in class JavaGrinders.SGTracker.SGRecordProc
 
itsImage_V - Variable in class JavaGrinders.SGTracker.SGRecordProc
 
itsLineColor - Variable in class JavaGrinders.Variable
 
itsLocationColor - Variable in class JavaGrinders.Variable
 
itsNCols - Variable in class JavaGrinders.DataTablePresenter
 
itsNRows - Variable in class JavaGrinders.DataTablePresenter
 
itsObjectSize - Variable in class JavaGrinders.SGTracker.TrackingJobSetting
 
itsPixelThreshold - Variable in class JavaGrinders.SGTracker.TrackingJobSetting
 
itsPreferedfps - Variable in class JavaGrinders.SGTracker.SGRecordProc
 
itsPreviousMoveVector - Variable in class JavaGrinders.spatial.MoveVector
 
itsRecordProc - Variable in class JavaGrinders.SGTracker.SGTracker
 
itsSecsToRun - Static variable in class JavaGrinders.SGTracker.SGTracker
 
itsSGTracker - Variable in class JavaGrinders.SGTracker.SGRecordProc
 
itsStringer - Static variable in class JavaGrinders.JavaGrinders
 
itsTable - Variable in class JavaGrinders.ContingencyAnalyzer
 
itsTable - Variable in class JavaGrinders.GoodnessOfFitResults
 
itsTotalItems - Variable in class JavaGrinders.SGTracker.ImagePixels
 
itsTotalSum - Variable in class JavaGrinders.ContingencyTable
 
itsTrackingType - Variable in class JavaGrinders.SGTracker.TrackingJobSetting
 
itsvideoC - Variable in class JavaGrinders.SGTracker.SGRecordProc
 
itsView - Variable in class JavaGrinders.SGTracker.TrackingJobSetting
 
itsVisualSpace - Variable in class JavaGrinders.spatial.MapDimensions
 
itsVisualSpace - Variable in class JavaGrinders.spatial.SpatialMapPresenter
 
itsXYMapDimensions - Variable in class JavaGrinders.spatial.SpatialDescriptives
 
itsXYRatio - Variable in class JavaGrinders.SGTracker.TrackingJobSetting
 
itsXZMapDimensions - Variable in class JavaGrinders.spatial.SpatialDescriptives
 
itsYZMapDimensions - Variable in class JavaGrinders.spatial.SpatialDescriptives
 

J

JavaGrinders - package JavaGrinders
 
JavaGrinders - Class in JavaGrinders
holds info as to version numbers etc.
JavaGrinders() - Constructor for class JavaGrinders.JavaGrinders
 
JavaGrinders.Applets - package JavaGrinders.Applets
 
JavaGrinders.Jama - package JavaGrinders.Jama
 
JavaGrinders.parametric - package JavaGrinders.parametric
 
JavaGrinders.PeripheralsControl - package JavaGrinders.PeripheralsControl
 
JavaGrinders.SGTracker - package JavaGrinders.SGTracker
 
JavaGrinders.socialModel - package JavaGrinders.socialModel
 
JavaGrinders.spatial - package JavaGrinders.spatial
 
JavaGrinders.Utilities - package JavaGrinders.Utilities
 

K

kAroundWindow - Static variable in class JavaGrinders.Presenter
 
Kendall - Variable in class JavaGrinders.LinearityResults
 
KendallTauValue - Variable in class JavaGrinders.ContTableResults
 
keyDown(char) - Method in class JavaGrinders.Applets.SpreadSheetInput
handles a single character for the inputfield
keyPressed(KeyEvent) - Method in class JavaGrinders.Applets.FrequencyMatrixApplet
 
keyReleased(KeyEvent) - Method in class JavaGrinders.Applets.FrequencyMatrixApplet
 
keyTyped(KeyEvent) - Method in class JavaGrinders.Applets.FrequencyMatrixApplet
 
kFrameLook - Static variable in class JavaGrinders.spatial.SpatialMapPresenter
 
kHeight - Variable in class JavaGrinders.SGTracker.SGTracker
 
kMenuBarHeight - Static variable in class JavaGrinders.Presenter
 
kOriginLook - Static variable in class JavaGrinders.spatial.SpatialMapPresenter
 
kPaspart - Static variable in class JavaGrinders.Presenter
 
kSizingValue - Static variable in class JavaGrinders.HistogramPresenter
 
Kurtosis - Variable in class JavaGrinders.NumberDescriptives
 
kWidth - Variable in class JavaGrinders.SGTracker.SGTracker
 

L

LABEL - Static variable in class JavaGrinders.VariableDesignRole
 
LabProBasicInfo - Class in JavaGrinders.PeripheralsControl
Title: LabPro Basic Information
LabProBasicInfo() - Constructor for class JavaGrinders.PeripheralsControl.LabProBasicInfo
Default constructor that does nothing
LabProBasicInfo(String, String[], float) - Constructor for class JavaGrinders.PeripheralsControl.LabProBasicInfo
Constructor of the LabPro Basic Infomation calss
LabProSerialPort - Class in JavaGrinders.PeripheralsControl
Title: LabPro Serial Port
LabProSerialPort() - Constructor for class JavaGrinders.PeripheralsControl.LabProSerialPort
Default constructor that does nothing
LabProSerialPort(LabProBasicInfo, Coordinator[]) - Constructor for class JavaGrinders.PeripheralsControl.LabProSerialPort
Constructor
LabProSerialPortTester - Class in JavaGrinders.PeripheralsControl
Title: LabPro Serial Port
LabProSerialPortTester(String) - Constructor for class JavaGrinders.PeripheralsControl.LabProSerialPortTester
Default constructor that does nothing
LabProSetupPanel - Class in JavaGrinders.PeripheralsControl
Title:
LabProSetupPanel(LabProBasicInfo, int) - Constructor for class JavaGrinders.PeripheralsControl.LabProSetupPanel
Construct the panel that contains the components used to setup LabPro
Landau - Variable in class JavaGrinders.LinearityResults
 
latlong - Variable in class JavaGrinders.spatial.CaptureVariable
 
LEFT - Static variable in class JavaGrinders.Applets.Cell
 
LEFT - Static variable in class JavaGrinders.spatial.View
 
lightenPixelValue(int, int) - Method in class JavaGrinders.SGTracker.ImagePixels
lightens a pixel value
LIGHTOBJECT - Static variable in class JavaGrinders.SGTracker.TrackingJobSetting
 
LinearityResults - Class in JavaGrinders
holds a set of results obtained for an analysis of linearity applied to a dominance table
LinearityResults() - Constructor for class JavaGrinders.LinearityResults
 
list() - Method in class JavaGrinders.Descriptives
reports the appropriate descriptives for the variable
list(Double) - Method in class JavaGrinders.Descriptives
reports the appropriate descriptives for comparing the variable to an external value
list() - Method in class JavaGrinders.Jama.Matrix
lists the table
list(boolean, boolean, boolean) - Method in class JavaGrinders.Jama.Matrix
lists the table
list(Double) - Method in class JavaGrinders.NumberDescriptives
reports the appropriate descriptives for comparing the variable to an external value
list() - Method in class JavaGrinders.parametric.CorrelationResults
reports the current values of the variables
list() - Method in class JavaGrinders.parametric.RegressionResults
reports the current values of the variables
list() - Method in class JavaGrinders.parametric.tTestResults
reports the current values of the variables
list(Double) - Method in class JavaGrinders.spatial.CircularDescriptives
reports the circular descriptives
list(Double) - Method in class JavaGrinders.spatial.MoveDescriptives
lists the descriptives
list(Double) - Method in class JavaGrinders.spatial.SpatialDescriptives
lists the descriptives
list() - Method in class JavaGrinders.SquaresCrossproducts
reports the current values of the variables
listANOVATable() - Method in class JavaGrinders.parametric.RegressionResults
lists the ANOVA table
listANOVATableBasic() - Method in class JavaGrinders.parametric.RegressionResults
lists the ANOVA table
listANOVATableDetail() - Method in class JavaGrinders.parametric.RegressionResults
lists the ANOVA table
listAppletInfo() - Method in class JavaGrinders.Applets.FrequencyMatrixApplet
lists info for the applet
listBasics() - Method in class JavaGrinders.Descriptives
reports the current descriptives for the variable
listBasics() - Method in class JavaGrinders.NumberDescriptives
reports the current values of the variables
listCircularDescriptives(boolean) - Method in class JavaGrinders.spatial.CaptureVariable
lists the descriptive statistics for the angles of the moves using the currently selected set of rows
listCircularDescriptives() - Method in class JavaGrinders.spatial.MoveVariable
lists the speed statistics for the variable using the currently selected set of rows
listContingencyResults() - Method in class JavaGrinders.ContingencyAnalyzer
performs a Test of Independence on the ContingencyTable/ and reports the results as statistics for X2 and loglikelihood ratio.
listContingencyResults() - Method in class JavaGrinders.ContingencyTable
does the test and returns its results
listCorrelationResults(NumberVariable) - Method in class JavaGrinders.NumberVariable
fills the regression statistics for the variable with control over th intercept
listCorrMatrix(VariableOrganizer) - Method in class JavaGrinders.parametric.ParametricAnalyzer
lists the correlation matrix for all dependent variables.
listCPixelValues(Rectangle) - Method in class JavaGrinders.SGTracker.ImagePixelsColor
Lists the pixel byte values within a given area of the ImagePixels
listDescriptives() - Method in class JavaGrinders.Variable
lists the descriptive statistics for the variable using the currently selected set of rows
listDescriptives(Double) - Method in class JavaGrinders.Variable
lists the descriptive statistics for the variable using the currently selected set of rows
listDescriptives() - Method in class JavaGrinders.VariableOrganizer
list descriptives for all Yvariables of the variableorganizer
listDetail - Static variable in class JavaGrinders.JavaGrinders
 
listDeviceControllers() - Method in class JavaGrinders.PeripheralsControl.DeviceInterface
lists data values for a range of rows
listDistanceMatrix(int) - Method in class JavaGrinders.spatial.CaptureVariable
lists a matrix of distances between all valid (i.e., selected and non-missing) locations
listEquation() - Method in class JavaGrinders.parametric.RegressionResults
lists the Regression formula for the line
listExpectedTable() - Method in class JavaGrinders.ContingencyAnalyzer
reports the expected values for the ContingencyTable
listExpectedTable() - Method in class JavaGrinders.ContingencyTable
lists a matrix of expected values
listF() - Method in class JavaGrinders.parametric.CorrelationResults
reports the comparison fo the statisic with the F-distribution
listFractalDimension() - Method in class JavaGrinders.spatial.CaptureVariable
lists the fractal dimension for the variable using the currently selected set of rows
listFractalDimension(double) - Method in class JavaGrinders.spatial.CaptureVariable
lists the fractal dimension for the variable using the currently selected set of rows
listFTukeyDeviates() - Method in class JavaGrinders.ContingencyAnalyzer
reports the Freeman-Tukey deviates for the ContingencyTable
listFTukeyDeviates() - Method in class JavaGrinders.ContingencyTable
lists Freeman-Tukey deviates for a cell wise examination of the table
listGoodnessOfFitResults() - Method in class JavaGrinders.ContingencyTable
reports the results for a replicated goodness of fit test with external hypothesis probabilities
listGroupDescriptiveItem() - Method in class JavaGrinders.spatial.AngleVariable
lists the descriptives for the groups identified by X
listGroupDescriptives(Variable, Variable) - Method in class JavaGrinders.Analyzer
lists the descriptive statistics for the groups identified by X
listGroupDescriptives(Variable, Variable) - Method in class JavaGrinders.HierarchyAnalyzer
lists the descriptive statistics for the groups identified by X
listGroupDescriptives(Variable) - Method in class JavaGrinders.NumberVariable
lists the descriptives for the groups identified by X
listGroupDescriptives(Variable) - Method in class JavaGrinders.spatial.AngleVariable
lists the descriptives for the groups identified by X
listGroupDescriptives(Variable) - Method in class JavaGrinders.spatial.CaptureVariable
lists the descriptives for the groups identified by X
listGroupDescriptives(Variable) - Method in class JavaGrinders.Variable
lists the descriptives for the groups identified by X
listGroupDescriptivesNoDia(Variable) - Method in class JavaGrinders.Variable
lists the descriptives for the groups identified by X
listGroupDescriptiveTitles() - Method in class JavaGrinders.spatial.AngleVariable
lists the descriptives for the groups identified by X
listIDs() - Method in class JavaGrinders.Descriptives
lists the frequencies for all instances of the variable using the currently selected set of rows
listIDs(int) - Method in class JavaGrinders.Descriptives
lists the frequencies for different instances of the variable using the currently selected set of rows up to the specified number of maxInstances
listinFileInfo() - Method in class JavaGrinders.DataFileParser
report some info on the content read from the text file
listinFileInfo(int, int) - Method in class JavaGrinders.DataFileParser
report some info on the content read from the text file
listInfo() - Method in class JavaGrinders.SGTracker.ImagePixels
lists descriptive info on the ImagePixels
listInfo() - Method in class JavaGrinders.SGTracker.Pixel
lists the info for the pixel
listLinearityResults() - Method in class JavaGrinders.DominanceTable
lists results from a Test for Linearity.
listLinearityResults() - Method in class JavaGrinders.InteractionTable
lists results from a Test for Linearity.
listLinRegressionResults(NumberVariable) - Method in class JavaGrinders.NumberVariable
fills the regression statistics for the variable with control over the intercept
listMantelZResults(ContingencyTable) - Method in class JavaGrinders.ContingencyTable
lists Mantel's Z for the table
listModelDesign() - Method in class JavaGrinders.parametric.RegressionResults
lists the variables and their design roles for the analysis
listMoveDescriptives(boolean) - Method in class JavaGrinders.spatial.CaptureVariable
lists the descriptive statistics for the moves using the currently selected set of rows
listMultLinRegressionResults(VariableOrganizer) - Method in class JavaGrinders.NumberVariable
fills the regression statistics for the variable with control over the intercept
listOrdinalRanks() - Method in class JavaGrinders.DominanceTable
report ordinal ranks for each individual
listPixelValues(Rectangle) - Method in class JavaGrinders.SGTracker.ImagePixels
Lists the pixel byte values within a given area of the ImagePixels
listPixelValues(Rectangle) - Method in class JavaGrinders.SGTracker.ImagePixelsColor
Lists the pixel byte values within a given area of the ImagePixels
listRanks() - Method in class JavaGrinders.InteractionTable
list ranks for each individual
listRaoSpacingCriticalValueTable() - Static method in class JavaGrinders.Utilities.RHUtilities
list the critical values of the Rao spacing statistic
listRelays() - Method in class JavaGrinders.PeripheralsControl.PhidgetRelayInterface
checks for all available serial ports
listReplicatedGoodnessOfFitResults(Variable) - Method in class JavaGrinders.ReplicatedGAnalyzer
reports a replicated goodness of fit test for the ContingencyTable
listResults() - Method in class JavaGrinders.ContTableResults
does the test and returns its results
listResults() - Method in class JavaGrinders.GoodnessOfFitResults
does the test and returns its results
listRowOrder(int, int, boolean) - Method in class JavaGrinders.Variable
lists data values for a range of rows
listRows() - Method in class JavaGrinders.Variable
lists all data values in the variable
listRows(boolean) - Method in class JavaGrinders.Variable
lists all data values in the variable
listRows(int, int, boolean) - Method in class JavaGrinders.Variable
lists data values for a range of rows
listRows() - Method in class JavaGrinders.VariableOrganizer
lists all data values in the variable
listRows(int, int, boolean) - Method in class JavaGrinders.VariableOrganizer
lists data values for a range of rows
listSelectedRows() - Method in class JavaGrinders.Variable
lists data values for all selected rows in the variable
listSelectedRows() - Method in class JavaGrinders.VariableOrganizer
lists data values for all selected rows in the variable
listSelectState() - Method in class JavaGrinders.Variable
lists for each row whether it is selected or not
listSelectState(int, int) - Method in class JavaGrinders.Variable
lists for a range of rows whether it is selected or not
listSelectState() - Method in class JavaGrinders.VariableOrganizer
lists for each row whether it is selected or not
listSelectState(int, int) - Method in class JavaGrinders.VariableOrganizer
lists for a range of rows whether it is selected or not
listSerialPorts() - Method in class JavaGrinders.PeripheralsControl.SerialDeviceController
checks for all available serial ports
listServos() - Method in class JavaGrinders.PeripheralsControl.PhidgetServoInterface
checks for all available serial ports
listSigStars(double) - Method in class JavaGrinders.Descriptives
adds stars to indicate levels of significance
listSSCPMatrix(VariableOrganizer) - Method in class JavaGrinders.parametric.ParametricAnalyzer
lists the variance/covariance matrix for all dependent variables.
listt() - Method in class JavaGrinders.parametric.CorrelationResults
reports the comparison fo the statisic with the F-distribution
listTable() - Method in class JavaGrinders.ContingencyAnalyzer
reports the ContingencyTable
listTable() - Method in class JavaGrinders.ContingencyTable
lists the table
listTable(boolean) - Method in class JavaGrinders.ContingencyTable
lists the table
listTauKrResults() - Method in class JavaGrinders.ContingencyTable
lists the Tau Kr for the table
listTetradAnalysis(Variable, Variable) - Method in class JavaGrinders.GroupAnalyzer
performs an analysis of the direction of three consecutive dyadic * interactions following Chase's jig-saw puzzle approach.
listUseRows() - Method in class JavaGrinders.Variable
lists data values for all selected rows in the variable
listValues() - Method in class JavaGrinders.spatial.Capture
returns the SpatialVector as a String
listVarCovarMatrix(VariableOrganizer) - Method in class JavaGrinders.parametric.ParametricAnalyzer
lists the variance/covariance matrix for all dependent variables.
listVariables() - Method in class JavaGrinders.VariableOrganizer
lists the Variables registered with the VariableOrganizer
listVersion() - Static method in class JavaGrinders.JavaGrinders
 
listVersion() - Method in class JavaGrinders.SGTracker.SGTracker
lists the version of the tracker
lnFactorial(double) - Static method in class JavaGrinders.Utilities.RHUtilities
Returns natural logarithm of factorial using gamma function.
lnfbeta(double, double) - Static method in class JavaGrinders.Utilities.RHUtilities
returns the beta
lnfgamma(double) - Method in class JavaGrinders.Utilities.ChiSquare
 
lnGamma(double) - Static method in class JavaGrinders.Utilities.RHUtilities
Returns natural logarithm of gamma function.
locateLabel(TrackingJobSetting) - Method in class JavaGrinders.SGTracker.ImagePixels
 
locateLabel(TrackingJobSetting) - Method in class JavaGrinders.SGTracker.ImagePixelsColor
finds the pixel with the grayscale value closest to the provided color
locateLabel(TrackingJobSetting) - Method in interface JavaGrinders.SGTracker.TrackerProc
 
locateLabels(TrackingJobSetting) - Method in class JavaGrinders.SGTracker.ImagePixels
 
locateLabels(TrackingJobSetting) - Method in interface JavaGrinders.SGTracker.TrackerProc
 
locateObjectCenter(TrackingJobSetting) - Method in class JavaGrinders.SGTracker.ImagePixels
finds the center location of the darkest/lightest object
locateObjectCenter(TrackingJobSetting) - Method in interface JavaGrinders.SGTracker.TrackerProc
 
locateObjectCenters(TrackingJobSetting) - Method in class JavaGrinders.SGTracker.ImagePixels
 
locateObjectCenters(TrackingJobSetting) - Method in interface JavaGrinders.SGTracker.TrackerProc
 
locatePixel(TrackingJobSetting) - Method in class JavaGrinders.SGTracker.ImagePixels
finds the location of the darkest/lightest object
locatePixel(TrackingJobSetting) - Method in interface JavaGrinders.SGTracker.TrackerProc
 
LOCATIONS - Static variable in class JavaGrinders.VariableType
 
lockPump() - Method in class JavaGrinders.PeripheralsControl.Coordinator
Set a lock on the pump so that no new message can be sent to it
lu() - Method in class JavaGrinders.Jama.Matrix
LU Decomposition
LUDecomposition - Class in JavaGrinders.Jama
LU Decomposition.
LUDecomposition(Matrix) - Constructor for class JavaGrinders.Jama.LUDecomposition
LU Decomposition

M

main(String[]) - Static method in class JavaGrinders.JavaGrinders
 
main(String[]) - Static method in class JavaGrinders.SGTracker.SGTracker
the main function of the class
makeConstraintsFromVars() - Method in class JavaGrinders.spatial.Group
creates a new Constraint that includes all selected coordinates of all selected animals
makeInterface() - Method in class JavaGrinders.PeripheralsControl.DeviceInterface
initializes empty interface for the devicecontroller
makeInterface() - Method in class JavaGrinders.PeripheralsControl.PhidgetRelayInterface
looks for and initializes the interfacekit for the relaycontroller
makeInterface() - Method in class JavaGrinders.PeripheralsControl.PhidgetServoInterface
looks for and initializes the ServoPhidget for the servocontroller
makeNewDescriptives() - Method in class JavaGrinders.NumberVariable
create a new set of descriptives for the variable the object
makeNewDescriptives() - Method in class JavaGrinders.spatial.AngleVariable
create a new set of descriptives for the variable the object
makeNewDescriptives() - Method in class JavaGrinders.spatial.CaptureVariable
create a new set of descriptives for the variable the object
makeNewDescriptives() - Method in class JavaGrinders.spatial.MoveVariable
create a new set of descriptives for the variable the object
makeNewDescriptives() - Method in class JavaGrinders.Variable
create a new set of descriptives for the variable the object
makeRectFromPoints(Point, Point) - Method in class JavaGrinders.SGTracker.SGVideoComponent
creates a Rectangle from two corner Points
makeTableSubSet(ContingencyTable) - Method in class JavaGrinders.Variable
returns a subset of row data values for the ContingencyTable as a ContingencyTable.
MANHATTAN - Static variable in class JavaGrinders.DataTable
 
MapDimensions - Class in JavaGrinders.spatial
provides the interface for obtaining descriptive statistics from continuous variables.
MapDimensions(double, double, double, double, double, double, double) - Constructor for class JavaGrinders.spatial.MapDimensions
standard constructor for the MapDimensions class with coordinates provided
MapDimensions(GridSpace3D, double) - Constructor for class JavaGrinders.spatial.MapDimensions
standard constructor for the MapDimensions class with coordinates provided
MapDimensions(GridSpace3D) - Constructor for class JavaGrinders.spatial.MapDimensions
standard constructor for the MapDimensions class with coordinates provided
MapDimensions(double, double, double, double, double) - Constructor for class JavaGrinders.spatial.MapDimensions
standard constructor for the MapDimensions class with coordinates provided
MapDimensions(double, double, double, double, double, double) - Constructor for class JavaGrinders.spatial.MapDimensions
standard constructor for the MapDimensions class with coordinates provided
masks - Variable in class JavaGrinders.SGTracker.SGRecordProc
 
matchedIDs(TreeMap) - Method in class JavaGrinders.Variable
returns whether there is a value in this variable that is not present in a given TreeMap
Matrix - Class in JavaGrinders.Jama
Jama = Java Matrix class.
Matrix(int, int) - Constructor for class JavaGrinders.Jama.Matrix
Construct an rows-by-cols matrix of zeros.
Matrix(int, int, double) - Constructor for class JavaGrinders.Jama.Matrix
Construct an rows-by-cols constant matrix.
Matrix(double[][]) - Constructor for class JavaGrinders.Jama.Matrix
Construct a matrix from a 2-D array.
Matrix(double[][], int, int) - Constructor for class JavaGrinders.Jama.Matrix
Construct a matrix quickly without checking arguments.
Matrix(double[], int) - Constructor for class JavaGrinders.Jama.Matrix
Construct a matrix from a one-dimensional packed array
MatrixCols - Variable in class JavaGrinders.ContingencyTable
 
MatrixRows - Variable in class JavaGrinders.ContingencyTable
 
Max - Variable in class JavaGrinders.NumberDescriptives
 
maxWindowRatioSize(double) - Method in class JavaGrinders.Presenter
scales the frame with a given width/height ratio to the full screen
maxWindowSize() - Method in class JavaGrinders.Presenter
scales the frame to the full screen available
Mean - Variable in class JavaGrinders.NumberDescriptives
 
meanDistanceToCenter - Variable in class JavaGrinders.spatial.SpatialDescriptives
 
MeanX - Variable in class JavaGrinders.parametric.RegressionResults
 
MeanX - Variable in class JavaGrinders.SquaresCrossproducts
 
MeanY - Variable in class JavaGrinders.parametric.tTestResults
 
MeanY - Variable in class JavaGrinders.SquaresCrossproducts
 
MeasureOfAssoc - Variable in class JavaGrinders.parametric.CorrelationResults
 
menuHeight - Variable in class JavaGrinders.SGTracker.SGTracker
 
miClear - Variable in class JavaGrinders.Presenter
 
miClose - Variable in class JavaGrinders.Presenter
 
miCopy - Variable in class JavaGrinders.Presenter
 
miCut - Variable in class JavaGrinders.Presenter
 
miDescriptX - Variable in class JavaGrinders.StatTablePresenter
 
miDescriptY - Variable in class JavaGrinders.StatTablePresenter
 
miFitXY - Variable in class JavaGrinders.StatTablePresenter
 
millisBetweenFrames - Variable in class JavaGrinders.SGTracker.SGRecordProc
 
Min - Variable in class JavaGrinders.NumberDescriptives
 
miNew - Variable in class JavaGrinders.Presenter
 
minus(Matrix) - Method in class JavaGrinders.Jama.Matrix
C = A - B
minus(SpatialVector) - Method in class JavaGrinders.spatial.SpatialVector
Subtracts a vector from this one and returns the result.
minusEquals(Matrix) - Method in class JavaGrinders.Jama.Matrix
A = A - B
minXYLocation - Variable in class JavaGrinders.spatial.SpatialDescriptives
 
minXZLocation - Variable in class JavaGrinders.spatial.SpatialDescriptives
 
minYZLocation - Variable in class JavaGrinders.spatial.SpatialDescriptives
 
miOpen - Variable in class JavaGrinders.Presenter
 
miPaste - Variable in class JavaGrinders.Presenter
 
miSave - Variable in class JavaGrinders.Presenter
 
miSaveAs - Variable in class JavaGrinders.Presenter
 
miSelectAll - Variable in class JavaGrinders.Presenter
 
miUndo - Variable in class JavaGrinders.Presenter
 
ModelEffects - Variable in class JavaGrinders.parametric.RegressionResults
 
mouseClicked(MouseEvent) - Method in class JavaGrinders.Applets.FrequencyMatrixApplet
 
mouseClicked(MouseEvent) - Method in class JavaGrinders.Applets.HierarchyMatrixApplet
 
mouseClicked(MouseEvent) - Method in class JavaGrinders.SGTracker.SGVideoComponent
handle a mouseClicked Event
mouseDragged(MouseEvent) - Method in class JavaGrinders.SGTracker.SGVideoComponent
handle a mouseDragged Event
mouseEntered(MouseEvent) - Method in class JavaGrinders.Applets.FrequencyMatrixApplet
 
mouseEntered(MouseEvent) - Method in class JavaGrinders.SGTracker.SGVideoComponent
handle a mouseEntered Event
mouseExited(MouseEvent) - Method in class JavaGrinders.Applets.FrequencyMatrixApplet
 
mouseExited(MouseEvent) - Method in class JavaGrinders.SGTracker.SGVideoComponent
handle a mouseExited Event
mouseMoved(MouseEvent) - Method in class JavaGrinders.SGTracker.SGVideoComponent
handle a mouseMoved Event
mousePressed(MouseEvent) - Method in class JavaGrinders.Applets.FrequencyMatrixApplet
 
mousePressed(MouseEvent) - Method in class JavaGrinders.SGTracker.SGVideoComponent
handle a mousePressed Event
mouseReleased(MouseEvent) - Method in class JavaGrinders.Applets.FrequencyMatrixApplet
 
mouseReleased(MouseEvent) - Method in class JavaGrinders.SGTracker.SGVideoComponent
handle a mouseReleased Event
moveCol(Variable, int) - Method in class JavaGrinders.VariableOrganizer
moves a column
MoveDescriptives - Class in JavaGrinders.spatial
provides the interface for obtaining descriptive statistics from continuous variables.
MoveDescriptives() - Constructor for class JavaGrinders.spatial.MoveDescriptives
empty constructor ensures that the only objects of this type are the elements enumerated above
MoveDescriptives(double) - Constructor for class JavaGrinders.spatial.MoveDescriptives
constructor ensures that the only objects of this type are the elements enumerated above
moveInStore - Variable in class JavaGrinders.spatial.Animal
 
MoveVariable - Class in JavaGrinders.spatial
handles a vector of information for a series of moves
MoveVariable(String, VariableOrganizer) - Constructor for class JavaGrinders.spatial.MoveVariable
Standard constructor for the MovesVariable class using a VariableOrganizer
MoveVector - Class in JavaGrinders.spatial
characterizes a single move from a start capture at one time to an end capture at another time.
MoveVector(Capture, Capture, SpatialVector) - Constructor for class JavaGrinders.spatial.MoveVector
Standard constructor for the MoveVector class with start and end captures, and pevious movement angle provided
MoveVector(Capture, Capture) - Constructor for class JavaGrinders.spatial.MoveVector
Standard constructor for the MoveVector class with start and end captures provided, no previous move is available
MoveVector(SpatialVector, SpatialVector) - Constructor for class JavaGrinders.spatial.MoveVector
Standard constructor for the MoveVector class with start and end captures provided
MoveVector() - Constructor for class JavaGrinders.spatial.MoveVector
Empty constructor for the MoveVector class with start at 0 and end capture provided
MSE - Variable in class JavaGrinders.parametric.RegressionResults
 
MSM - Variable in class JavaGrinders.parametric.RegressionResults
 
MSMP - Variable in class JavaGrinders.parametric.RegressionResults
 
multiply(double) - Method in class JavaGrinders.NumberVariable
multiplies the constant with each value of the variable
multiply(NumberVariable) - Method in class JavaGrinders.NumberVariable
multiplies the variable with the corresponding value of the other variable
MultiVarAnalyzer - Class in JavaGrinders.parametric
ParametricAnalyzer class - sets up a general analyzer for continuous data.
MultiVarAnalyzer(VariableOrganizer) - Constructor for class JavaGrinders.parametric.MultiVarAnalyzer
Standard constructor for ParametricAnalyzer
MultRegressionResults - Class in JavaGrinders.parametric
provides the interface for obtaining descriptive statistics from continuous variables.
MultRegressionResults(int) - Constructor for class JavaGrinders.parametric.MultRegressionResults
empty constructor

N

N - Variable in class JavaGrinders.Descriptives
 
nativeDSequence_D - Variable in class JavaGrinders.SGTracker.SGRecordProc
 
nativeDSequence_L - Variable in class JavaGrinders.SGTracker.SGRecordProc
 
nativeDSequence_V - Variable in class JavaGrinders.SGTracker.SGRecordProc
 
nativeGraphics - Variable in class JavaGrinders.SGTracker.SGRecordProc
 
nativeHeight - Variable in class JavaGrinders.SGTracker.SGTracker
 
nativeImg - Variable in class JavaGrinders.SGTracker.SGRecordProc
 
nativeRect - Variable in class JavaGrinders.SGTracker.SGTracker
 
nativeWidth - Variable in class JavaGrinders.SGTracker.SGTracker
 
nChannels - Variable in class JavaGrinders.PeripheralsControl.DeviceInterface
 
nCols - Variable in class JavaGrinders.GoodnessOfFitResults
 
negate() - Method in class JavaGrinders.spatial.SpatialVector
negate the SpatialVector
negateX() - Method in class JavaGrinders.spatial.SpatialVector
negate the x axis of the SpatialVector
negateY() - Method in class JavaGrinders.spatial.SpatialVector
negate the y axis of the SpatialVector
negateZ() - Method in class JavaGrinders.spatial.SpatialVector
negate the z axis of the SpatialVector
netDisplacement - Variable in class JavaGrinders.spatial.MoveDescriptives
 
next(int) - Method in class JavaGrinders.Utilities.RandomNumberGenerator
 
nextBeta(double, double) - Method in class JavaGrinders.Utilities.RandomNumberGenerator
 
nextBoolean() - Method in class JavaGrinders.Utilities.RandomNumberGenerator
 
nextBoolean(double) - Method in class JavaGrinders.Utilities.RandomNumberGenerator
 
nextChiSq() - Method in class JavaGrinders.Utilities.RandomNumberGenerator
 
nextChiSq(int) - Method in class JavaGrinders.Utilities.RandomNumberGenerator
 
nextChiSq(int, double) - Method in class JavaGrinders.Utilities.RandomNumberGenerator
 
nextExp() - Method in class JavaGrinders.Utilities.RandomNumberGenerator
 
nextExp(double) - Method in class JavaGrinders.Utilities.RandomNumberGenerator
 
nextExp(double, double) - Method in class JavaGrinders.Utilities.RandomNumberGenerator
 
nextFrameTime - Variable in class JavaGrinders.SGTracker.SGRecordProc
 
nextGamma() - Method in class JavaGrinders.Utilities.RandomNumberGenerator
 
nextGamma(double, double) - Method in class JavaGrinders.Utilities.RandomNumberGenerator
 
nextGamma(double, double, double) - Method in class JavaGrinders.Utilities.RandomNumberGenerator
 
nextGaussian() - Method in class JavaGrinders.Utilities.RandomNumberGenerator
 
nextGaussian(double, double) - Method in class JavaGrinders.Utilities.RandomNumberGenerator
 
nextInt() - Method in class JavaGrinders.Utilities.RandomNumberGenerator
 
nextInt(int) - Method in class JavaGrinders.Utilities.RandomNumberGenerator
 
nextMove(double, double, boolean) - Method in class JavaGrinders.Utilities.RHRandomNumberGenerator
returns a Capture with random coordinates
nextPoisson(double) - Method in class JavaGrinders.Utilities.RandomNumberGenerator
 
nextPoisson() - Method in class JavaGrinders.Utilities.RandomNumberGenerator
 
nextPolarVector(double, double, boolean) - Method in class JavaGrinders.Utilities.RHRandomNumberGenerator
returns a Capture with random coordinates
nextSpatialVector(GridSpace3D) - Method in class JavaGrinders.Utilities.RHRandomNumberGenerator
returns a Capture with random coordinates
nextUniform() - Method in class JavaGrinders.Utilities.RandomNumberGenerator
 
nextUniform(double, double) - Method in class JavaGrinders.Utilities.RandomNumberGenerator
 
nFactorialTerms - Variable in class JavaGrinders.parametric.RegressionResults
 
nFramesProcessed - Variable in class JavaGrinders.SGTracker.SGTracker
 
nHTiles - Variable in class JavaGrinders.SGTracker.TrackingJobTileGroup
 
nInteractionTerms - Variable in class JavaGrinders.parametric.RegressionResults
 
nMainTerms - Variable in class JavaGrinders.parametric.RegressionResults
 
nMiss - Variable in class JavaGrinders.Descriptives
 
nModelEffects - Variable in class JavaGrinders.parametric.RegressionResults
 
NO - Static variable in class JavaGrinders.PeripheralsControl.Coordinator
 
NOMINAL - Static variable in class JavaGrinders.VariableType
 
NONE - Variable in class JavaGrinders.Applets.FrequencyMatrixApplet
 
NONE - Static variable in class JavaGrinders.VariableDesignRole
 
norm1() - Method in class JavaGrinders.Jama.Matrix
One norm
norm2() - Method in class JavaGrinders.Jama.Matrix
Two norm
norm2() - Method in class JavaGrinders.Jama.SingularValueDecomposition
Two norm
normF() - Method in class JavaGrinders.Jama.Matrix
Frobenius norm
normInf() - Method in class JavaGrinders.Jama.Matrix
Infinity norm
noSumsToString() - Method in class JavaGrinders.ContingencyTable
returns the formatted table without sums as a string
nRows - Variable in class JavaGrinders.GoodnessOfFitResults
 
Nsel - Variable in class JavaGrinders.Descriptives
 
nTrackJobs - Static variable in class JavaGrinders.SGTracker.SGTracker
 
NUM_MAXITERATOR - Variable in class JavaGrinders.ContingencyTable
 
NUMBER - Static variable in class JavaGrinders.VariableFormat
 
NumberDescriptives - Class in JavaGrinders
provides the interface for obtaining descriptive statistics from continuous variables.
NumberDescriptives() - Constructor for class JavaGrinders.NumberDescriptives
empty constructor
NumberVariable - Class in JavaGrinders
handles things that a general variable containing numbers should do or know about.
NumberVariable(String, VariableOrganizer) - Constructor for class JavaGrinders.NumberVariable
Standard constructor for the root number Variable class using a VariableOrganizer
NumberVariable(String, VariableOrganizer, double[]) - Constructor for class JavaGrinders.NumberVariable
Standard constructor for the NumberVariable class using a double array of data
nViews - Variable in class JavaGrinders.SGTracker.SGTracker3D
 
nVTiles - Variable in class JavaGrinders.SGTracker.TrackingJobTileGroup
 

O

onTheMove - Variable in class JavaGrinders.spatial.MoveDescriptives
 
openEventLog(String) - Method in class JavaGrinders.PeripheralsControl.Coordinator
 
openFile - Variable in class JavaGrinders.SGTracker.SGTracker
 
ORDINAL - Static variable in class JavaGrinders.VariableType
 
Origin - Variable in class JavaGrinders.Grid
 
out - Variable in class JavaGrinders.PeripheralsControl.SerialDeviceController
 

P

paint(Graphics) - Method in class JavaGrinders.Applets.Cell
paints the cell
paint(Graphics) - Method in class JavaGrinders.Applets.FrequencyMatrixApplet
basic routine to coordinate a full paint of the applet
paint(Graphics) - Method in class JavaGrinders.SGTracker.SGPathPlotter
repaint the whole composition and blit to the JPanel.
paint(Graphics) - Method in class JavaGrinders.SGTracker.SGVideoComponent
repaint the whole composition and blit to the JPanel.
paintExpected(Graphics) - Method in class JavaGrinders.Applets.FrequencyMatrixApplet
basic routine to paint the expected cells
paintFields(Graphics) - Method in class JavaGrinders.Applets.FrequencyMatrixApplet
paints the various fields
paintGrid(Graphics) - Method in class JavaGrinders.Applets.FrequencyMatrixApplet
basic routine to paint the frame for the grid for the cells
paintObserved(Graphics) - Method in class JavaGrinders.Applets.FrequencyMatrixApplet
basic routine to paint the observed cells
Parameters - Variable in class JavaGrinders.parametric.RegressionResults
 
ParametricAnalyzer - Class in JavaGrinders.parametric
ParametricAnalyzer class - sets up a general analyzer for continuous data.
ParametricAnalyzer(VariableOrganizer) - Constructor for class JavaGrinders.parametric.ParametricAnalyzer
Standard constructor for ParametricAnalyzer
ParametricTerm - Class in JavaGrinders.parametric
VariableDesignRole class - specifies the datatype that best characterizes the variable
ParametricTerm() - Constructor for class JavaGrinders.parametric.ParametricTerm
empty private constructor ensures that the only objects of this type are the elements * enumerated above
PARTIAL - Variable in class JavaGrinders.Applets.FrequencyMatrixApplet
 
pchisq(double, double) - Method in class JavaGrinders.Utilities.ChiSquare
 
PhidgetRelayInterface - Class in JavaGrinders.PeripheralsControl
the main class controlling a microinfusion pump
PhidgetRelayInterface(int) - Constructor for class JavaGrinders.PeripheralsControl.PhidgetRelayInterface
standard constructor for the PhidgetRelayController class
PhidgetServoInterface - Class in JavaGrinders.PeripheralsControl
the main class controlling a microinfusion pump
PhidgetServoInterface(int) - Constructor for class JavaGrinders.PeripheralsControl.PhidgetServoInterface
standard constructor for the PhidgetRelayController class
pickColors() - Method in class JavaGrinders.SGTracker.SGVideoComponent
turn on color selection
PicturePresenter - Class in JavaGrinders
a presenter for a picture placed within a JFrame.
PicturePresenter(String, double) - Constructor for class JavaGrinders.PicturePresenter
standard constructor for the PicturePresenter class.
PicturePresenter(double) - Constructor for class JavaGrinders.PicturePresenter
constructor for the PicturePresenter class.
PicturePresenter() - Constructor for class JavaGrinders.PicturePresenter
constructor for the PicturePresenter class.
Pixel - Class in JavaGrinders.SGTracker
a pixel structure
Pixel(int, int, int) - Constructor for class JavaGrinders.SGTracker.Pixel
Standard constructor for the Pixel class.
Pixel(int, int) - Constructor for class JavaGrinders.SGTracker.Pixel
Standard constructor for the Pixel class.
Pixel() - Constructor for class JavaGrinders.SGTracker.Pixel
empty constructor for the Pixel class.
Pixel(Point, int) - Constructor for class JavaGrinders.SGTracker.Pixel
Standard constructor for the Pixel class.
PixelCols - Variable in class JavaGrinders.SGTracker.ImagePixels
 
pixelData_D - Static variable in class JavaGrinders.SGTracker.SGRecordProc
 
pixelData_L - Static variable in class JavaGrinders.SGTracker.SGRecordProc
 
pixelData_V - Static variable in class JavaGrinders.SGTracker.SGRecordProc
 
PixelRows - Variable in class JavaGrinders.SGTracker.ImagePixels
 
pixelSpaceX - Variable in class JavaGrinders.spatial.SpatialMapPresenter
 
pixelSpaceY - Variable in class JavaGrinders.spatial.SpatialMapPresenter
 
plot(CaptureVariable) - Method in class JavaGrinders.spatial.SpatialMapPresenter
plots the grids and locations
plot(Group) - Method in class JavaGrinders.spatial.SpatialMapPresenter
plots the coordinates contained within a Group
plotAngles() - Method in class JavaGrinders.spatial.CircularGraphPresenter
draws the frame for the circle and labels the angles
plotCircularGraph(int[]) - Method in class JavaGrinders.spatial.CircularGraphPresenter
draws the frame for the circle and labels the angles
plotCircularMean(double, double) - Method in class JavaGrinders.spatial.CircularGraphPresenter
draws the frame for the circle and labels the angles
plotData(NumberVariable) - Method in class JavaGrinders.HistogramPresenter
draws the histogram
plotGrids() - Method in class JavaGrinders.spatial.SpatialMapPresenter
plots the grids
plotHistogram(NumberVariable) - Method in class JavaGrinders.HistogramPresenter
plots the grids and locations
plotLocations(CaptureVariable) - Method in class JavaGrinders.spatial.SpatialMapPresenter
plots the coordinates
plotMapFrame() - Method in class JavaGrinders.HistogramPresenter
draws the frame for the map and labels the coordinates
plotMapFrame() - Method in class JavaGrinders.spatial.SpatialMapPresenter
draws the frame for the map and labels the coordinates
plotMoves(MoveVariable) - Method in class JavaGrinders.spatial.SpatialMapPresenter
plots the coordinates
plotMoveSpeeds(MoveVariable) - Method in class JavaGrinders.spatial.SpatialMapPresenter
plots the coordinates
plotPoly(SGPolygon) - Method in class JavaGrinders.SGTracker.SGPathPlotter
 
plotPoly(SGPolygon, Color) - Method in class JavaGrinders.SGTracker.SGPathPlotter
 
plotPt(Point, Color) - Method in class JavaGrinders.SGTracker.SGPathPlotter
plot the pixel into the SGPathPlotter
plotXGrid() - Method in class JavaGrinders.spatial.SpatialMapPresenter
plots the X axis grid
plotYGrid() - Method in class JavaGrinders.spatial.SpatialMapPresenter
plots the vertical grid
plus(Matrix) - Method in class JavaGrinders.Jama.Matrix
C = A + B
plus(SpatialVector) - Method in class JavaGrinders.spatial.SpatialVector
Adds another vector to this vector.
plusEquals(Matrix) - Method in class JavaGrinders.Jama.Matrix
A = A + B
PolarVector - Class in JavaGrinders.spatial
characterizes a spherical vector with degrees for longitude and latitude, and vector length
PolarVector(double, double, double) - Constructor for class JavaGrinders.spatial.PolarVector
constructor specifying initial degrees for longitude and latitude, and vector length.
PolarVector() - Constructor for class JavaGrinders.spatial.PolarVector
constructor that creates a zero vector.
powerDown() - Method in class JavaGrinders.PeripheralsControl.SerialDeviceController
shut down communication with the serial device
powerUp(boolean) - Method in class JavaGrinders.SGTracker.SGTracker
set-up all the needed parts for capturing objects of interest
PP - Variable in class JavaGrinders.parametric.RegressionResults
 
PRECISIONMULT - Variable in class JavaGrinders.ContingencyTable
 
PREPARE - Static variable in class JavaGrinders.SGTracker.SGTracker
 
Presenter - Class in JavaGrinders
root class for all kinds of objects that visualize data
Presenter(String, double) - Constructor for class JavaGrinders.Presenter
Standard constructor for the Presenter class
Presenter(double) - Constructor for class JavaGrinders.Presenter
Constructor for the Presenter class
Presenter() - Constructor for class JavaGrinders.Presenter
Constructor for the Presenter class
print(int, int) - Method in class JavaGrinders.Jama.Matrix
Print the matrix to stdout.
print(PrintWriter, int, int) - Method in class JavaGrinders.Jama.Matrix
Print the matrix to the output stream.
print(NumberFormat, int) - Method in class JavaGrinders.Jama.Matrix
Print the matrix to stdout.
print(PrintWriter, NumberFormat, int) - Method in class JavaGrinders.Jama.Matrix
Print the matrix to the output stream.
Prob - Variable in class JavaGrinders.parametric.tTestResults
 
projectHotZones(GridSpace3D[]) - Method in class JavaGrinders.SGTracker.TrackingJobSettingsGroup
sets constructor for the TrackingJobSettingsGroup class.

Q

qdg - Variable in class JavaGrinders.PicturePresenter
 
qr() - Method in class JavaGrinders.Jama.Matrix
QR Decomposition
QRDecomposition - Class in JavaGrinders.Jama
QR Decomposition.
QRDecomposition(Matrix) - Constructor for class JavaGrinders.Jama.QRDecomposition
QR Decomposition, computed by Householder reflections.

R

R - Variable in class JavaGrinders.parametric.RegressionResults
 
r2 - Variable in class JavaGrinders.parametric.CorrelationResults
 
R2 - Variable in class JavaGrinders.parametric.RegressionResults
 
R2adj - Variable in class JavaGrinders.parametric.RegressionResults
 
rand - Variable in class JavaGrinders.Variable
 
random(int, int) - Static method in class JavaGrinders.Jama.Matrix
Generate matrix with random elements
RandomNumberGenerator - Class in JavaGrinders.Utilities
 
RandomNumberGenerator() - Constructor for class JavaGrinders.Utilities.RandomNumberGenerator
 
RandomNumberGenerator(long) - Constructor for class JavaGrinders.Utilities.RandomNumberGenerator
 
rank() - Method in class JavaGrinders.Jama.Matrix
Matrix rank
rank() - Method in class JavaGrinders.Jama.SingularValueDecomposition
Effective numerical matrix rank
rank(boolean) - Method in class JavaGrinders.NumberVariable
rank the values in this array
RaoSpacingU - Variable in class JavaGrinders.spatial.CircularDescriptives
 
RaoSpacingUProb - Variable in class JavaGrinders.spatial.CircularDescriptives
 
RayleighProb - Variable in class JavaGrinders.spatial.CircularDescriptives
 
RayleighR - Variable in class JavaGrinders.spatial.CircularDescriptives
 
RayleighZ - Variable in class JavaGrinders.spatial.CircularDescriptives
 
read(BufferedReader) - Static method in class JavaGrinders.Jama.Matrix
Read a matrix from a stream.
readToInternalArray() - Method in class JavaGrinders.DataFileParser
nitty gritty of reading and parsing, it first steps thrpugh and gets the number * of rows and columns, then opens an array of that size to read into, then fills * it with the content of the file in a second pass
recordRects() - Method in class JavaGrinders.SGTracker.SGVideoComponent
turn on tracing of Area of interest
rectOrigin - Variable in class JavaGrinders.SGTracker.TrackingJobSetting
 
refBufferedImage - Variable in class JavaGrinders.SGTracker.SGRecordProc
 
refDecompImage - Variable in class JavaGrinders.SGTracker.SGRecordProc
 
refDSequence_D - Variable in class JavaGrinders.SGTracker.SGRecordProc
 
refDSequence_L - Variable in class JavaGrinders.SGTracker.SGRecordProc
 
REFERENCE - Static variable in class JavaGrinders.SGTracker.SGTracker
 
referenceButton - Variable in class JavaGrinders.SGTracker.SGTracker
 
refPict - Variable in class JavaGrinders.SGTracker.SGTracker
 
register(Variable) - Method in class JavaGrinders.spatial.Group
registers an Animal in the group
register(Variable) - Method in class JavaGrinders.VariableOrganizer
submit control of the variable to a VariableOrganizer
RegressionResults - Class in JavaGrinders.parametric
provides the interface for obtaining descriptive statistics from continuous variables.
RegressionResults(int) - Constructor for class JavaGrinders.parametric.RegressionResults
empty constructor
relativeToFrame(Point) - Method in class JavaGrinders.SGTracker.Pixel
calculates coordinates relative to another Point
relativeToFrame(Point, Point) - Static method in class JavaGrinders.SGTracker.TrackingJobSetting
calculates coordinates relative to another Point
relativeToOrigin - Variable in class JavaGrinders.SGTracker.TrackingJobSetting
 
relativeToPoint(Point, Point) - Static method in class JavaGrinders.SGTracker.TrackingJobSetting
calculates coordinates relative to another Point
reMap(SpatialVector) - Method in class JavaGrinders.spatial.Arena
returns the MapDimensions for the Constraint
reMap(Capture) - Method in class JavaGrinders.spatial.Constraint
returns the Capture remapped according to the rules of the constraint
reMap(SpatialVector) - Method in class JavaGrinders.spatial.Constraint
returns the spatial vector remapped according to the rules of the constraint
reMap(SpatialVector) - Method in class JavaGrinders.spatial.WrapAroundWorld
returns the MapDimensions for the Constraint
reMapInConstraint(SpatialVector) - Method in class JavaGrinders.spatial.CaptureVariable
remaps a capture for a given constraint
remapLatLongToDistanceCoords(SpatialVector) - Method in class JavaGrinders.spatial.SpatialVector
returns a latitude/longitude Capture remapped into a real distance
replaceSelectedRows(Object) - Method in class JavaGrinders.Variable
sets the select flag for all rows based on select state of another variable
ReplicatedGAnalyzer - Class in JavaGrinders
coordinates the analysis of contingency tables in an application.
ReplicatedGAnalyzer(InteractionTable) - Constructor for class JavaGrinders.ReplicatedGAnalyzer
Standard constructor using an InteractionTable
ReplicatedGAnalyzer(VariableOrganizer) - Constructor for class JavaGrinders.ReplicatedGAnalyzer
Standard constructor using a VariableOrganizer and an InteractionTable
ReplicatedGoodnessOfFitResults - Class in JavaGrinders
holds a set of results obtained for an analysis of a contingency table
ReplicatedGoodnessOfFitResults(int[], int[], int[], double[]) - Constructor for class JavaGrinders.ReplicatedGoodnessOfFitResults
Standard constructor
resamplePath(double[]) - Method in class JavaGrinders.spatial.CaptureVariable
retraces the path with different step lengths
resetComposer() - Method in class JavaGrinders.SGTracker.SGPathPlotter
resets the graphics world for the plotting canvas
restoreSelectedRows() - Method in class JavaGrinders.Variable
restores the select flag for all rows from a previously saved set
restoreSelectedRows() - Method in class JavaGrinders.VariableOrganizer
restores the select flag for all rows from a previously saved set
restrictToMatchingUseRows(Variable) - Method in class JavaGrinders.Variable
restricts the select flag to those rows that are usable in both variables
restrictToMatchingUseRows(VariableOrganizer) - Method in class JavaGrinders.Variable
restricts the use flag to those rows that are usable in the variables as well as in the Organizer
restrictToMatchingUseRows() - Method in class JavaGrinders.VariableOrganizer
restricts to those rows that are usable across the entire VariableOrganizer
restrictToMatchingUseRows(Variable) - Method in class JavaGrinders.VariableOrganizer
restricts to those rows that are usable in this and the other variable
restrictToMatchingUseRows(VariableOrganizer) - Method in class JavaGrinders.VariableOrganizer
restricts the use flag to those rows that are usable in both VariableOrganizers
restrictToValidRowsOnly() - Method in class JavaGrinders.Variable
sets the select flag for all valid (non-missing) rows to true
reverseRows(int, int, boolean) - Method in class JavaGrinders.Variable
reverses the values of two given rows
reverseRows(int, int) - Method in class JavaGrinders.VariableOrganizer
reverses the values of two given rows
RHRandomNumberGenerator - Class in JavaGrinders.Utilities
VariableFormat class - specifies whether variable contains
RHRandomNumberGenerator() - Constructor for class JavaGrinders.Utilities.RHRandomNumberGenerator
empty private constructor
RHUtilities - Class in JavaGrinders.Utilities
implements support functions used in the JavaGrinders library
RHUtilities() - Constructor for class JavaGrinders.Utilities.RHUtilities
 
RIGHT - Static variable in class JavaGrinders.Applets.Cell
 
RIGHT - Static variable in class JavaGrinders.spatial.View
 
RootMSE - Variable in class JavaGrinders.parametric.RegressionResults
 
rotate(SpatialVector) - Method in class JavaGrinders.spatial.SpatialVector
Rotate vector in XYZ
rotate(double, double) - Method in class JavaGrinders.spatial.SpatialVector
Rotate vector in XYZ
rotateXY(double) - Method in class JavaGrinders.spatial.SpatialVector
Rotate vector in XY
rotateXZ(double) - Method in class JavaGrinders.spatial.SpatialVector
Rotate vector in XY
roundDown(double) - Static method in class JavaGrinders.Utilities.RHUtilities
returns the number rounded down to the next lower integer
roundUp(double) - Static method in class JavaGrinders.Utilities.RHUtilities
returns the number rounded up to the next higher integer
Rows - Variable in class JavaGrinders.Descriptives
 
rowToString(int) - Method in class JavaGrinders.ContingencyTable
returns the formated object as a string
run() - Method in class JavaGrinders.PeripheralsControl.LabProSerialPort
 
run() - Method in class JavaGrinders.PeripheralsControl.LabProSerialPortTester
 
run() - Method in class JavaGrinders.SGTracker.SGRunner
idle the sequencegrabber
runTime - Variable in class JavaGrinders.SGTracker.SGRecordProc
 

S

sampleConstantStepSize(long) - Method in class JavaGrinders.spatial.Group
returns a specific Animal from the entire group
saveFile - Variable in class JavaGrinders.SGTracker.SGTracker
 
saveFile() - Static method in class JavaGrinders.Utilities.RHUtilities
user selects a file to save
saveSelectedRows() - Method in class JavaGrinders.Variable
saves the select flag for all rows
saveSelectedRows() - Method in class JavaGrinders.VariableOrganizer
saves the select flag for all rows
saveTheContent(File) - Method in class JavaGrinders.DataTablePresenter
handles a save as event
saveTheContentPict(QTFile) - Method in class JavaGrinders.PicturePresenter
handles a save as event
scale(Point) - Method in class JavaGrinders.SGTracker.SGPathPlotter
scales a point from native to window coordinates
scale(Rectangle) - Method in class JavaGrinders.SGTracker.SGPathPlotter
scales a rectangle from native to window coordinates
scale(Polygon) - Method in class JavaGrinders.SGTracker.SGPathPlotter
scales a polygon from native to window coordinates
scale(Rectangle) - Method in class JavaGrinders.SGTracker.SGVideoComponent
scales a rectangle from native to window coordinates
scale(double) - Method in class JavaGrinders.spatial.SpatialVector
Multiplies this vector by a scalar and keeps the result.
scaleFrameSize(double) - Method in class JavaGrinders.Presenter
scales the frame to a given screen size
scaleFrameToFullRatioScreenSize(double) - Method in class JavaGrinders.Presenter
scales the frame to the full screen available with a given width / height ratio for the content
scaleFrameToFullScreenSize() - Method in class JavaGrinders.Presenter
scales the frame to the full screen available
scaleMouseLocation(int, int) - Method in class JavaGrinders.Applets.FrequencyMatrixApplet
translates the mouse Capture from screen coordinates to rows and columns of the matrix
scaleWindow() - Method in class JavaGrinders.SGTracker.SGTracker
scales the frame of the tracker to fit onto the screen.
SD - Variable in class JavaGrinders.NumberDescriptives
 
SDY - Variable in class JavaGrinders.parametric.tTestResults
 
SE - Variable in class JavaGrinders.NumberDescriptives
 
selectAbove(double, boolean) - Method in class JavaGrinders.NumberVariable
select all rows with a value greater than the one provided
selectAbove(double, double, double, boolean) - Method in class JavaGrinders.spatial.CaptureVariable
select all rows with a value greater than the one provided
selectAbove(Variable, double, boolean) - Method in class JavaGrinders.VariableOrganizer
selects all rows that contain a double value above a given double value with the option to select from the previous set
selectAboveDistance(double, boolean) - Method in class JavaGrinders.spatial.CaptureVariable
select all rows with a value less than the one provided
selectAboveEqual(double, boolean) - Method in class JavaGrinders.NumberVariable
select all rows with a value greater or equal than the one provided
selectAboveEqual(double, double, double, boolean) - Method in class JavaGrinders.spatial.CaptureVariable
select all rows with a value greater than the one provided
selectAboveSpeed(double, boolean) - Method in class JavaGrinders.spatial.CaptureVariable
select all rows with a value less than the one provided
selectAfter(long, boolean) - Method in class JavaGrinders.spatial.CaptureVariable
select all rows with a value greater than the one provided
selectAfterEqual(long, boolean) - Method in class JavaGrinders.spatial.CaptureVariable
select all rows with a value greater than the one provided
selectAllRows() - Method in class JavaGrinders.Variable
sets the select flag for all rows to true
selectAllRows() - Method in class JavaGrinders.VariableOrganizer
sets the select flag for all rows to true
selectAngleRangeN(double, double) - Method in class JavaGrinders.spatial.AngleVariable
select all rows with a value between the lower and upper limits provided.
selectBefore(long, boolean) - Method in class JavaGrinders.spatial.CaptureVariable
select all rows with a value greater than the one provided
selectBeforeEqual(long, boolean) - Method in class JavaGrinders.spatial.CaptureVariable
select all rows with a value greater than the one provided
selectBelow(double, boolean) - Method in class JavaGrinders.NumberVariable
select all rows with a value less than the one provided
selectBelow(double, double, double, boolean) - Method in class JavaGrinders.spatial.CaptureVariable
select all rows with a value less than the one provided
selectBelow(Variable, double, boolean) - Method in class JavaGrinders.VariableOrganizer
selects all rows that contain a double value below a given double value with the option to select from the previous set
selectBelowDistance(double, boolean) - Method in class JavaGrinders.spatial.CaptureVariable
select all rows with a value less than the one provided
selectBelowEqual(double, boolean) - Method in class JavaGrinders.NumberVariable
select all rows with a value less or equal than the one provided
selectBelowEqual(double, double, double, boolean) - Method in class JavaGrinders.spatial.CaptureVariable
select all rows with a value less or equal than the one provided
selectBelowSpeed(double, boolean) - Method in class JavaGrinders.spatial.CaptureVariable
select all rows with a value less than the one provided
selectBetween(long, long, boolean) - Method in class JavaGrinders.spatial.CaptureVariable
select all rows with a value greater equal the start time and less or equal the end time
selectCell(int, int) - Method in class JavaGrinders.Applets.FrequencyMatrixApplet
selects a cell in the data matrix if it can be edited
selectDuplicateRows() - Method in class JavaGrinders.Variable
sets the select flag for all duplicate rows
selectEqual(double, boolean) - Method in class JavaGrinders.NumberVariable
select all rows with a value greater or equal than the one provided
selectFirstValidCell() - Method in class JavaGrinders.Applets.FrequencyMatrixApplet
returns the first valid cell in the data matrix
selectInArea(GridSpace3D, boolean) - Method in class JavaGrinders.spatial.CaptureVariable
select all rows with a value locatad within the 3D box
selectNextValidCell() - Method in class JavaGrinders.Applets.FrequencyMatrixApplet
finds and selects the first valid cell in the data matrix
selectNonMissingRows() - Method in class JavaGrinders.VariableOrganizer
restricts use to those rows that are usable across all variables
selectRange(double, double, boolean) - Method in class JavaGrinders.NumberVariable
select all rows with a value between the lower and upper limits provided.
selectRange(double, double, boolean) - Method in class JavaGrinders.spatial.AngleVariable
select all rows with a value between the lower and upper limits provided when moving in a clockwise fashion.
selectRange(double, double, boolean, boolean) - Method in class JavaGrinders.spatial.AngleVariable
select all rows with a value between the lower and upper limits provided.
selectRange(Variable, double, double, boolean) - Method in class JavaGrinders.VariableOrganizer
selects all rows that contain a double value between two given double values with the option from the previous set
selectRows(String, boolean) - Method in class JavaGrinders.StrVariable
select all rows with a String that matches the one provided
selectRows(int, int) - Method in class JavaGrinders.Variable
sets the select flag for all rows to true
selectRows(int, int) - Method in class JavaGrinders.VariableOrganizer
sets the select flag for all rows to true
selectUseRows() - Method in class JavaGrinders.Variable
restricts the select flag to those rows that are usable in both variables
selectValue(Object, boolean) - Method in class JavaGrinders.Variable
selects rows that match a given object from the currently selected set of rows
selectValue(Variable, Object, boolean) - Method in class JavaGrinders.VariableOrganizer
selects all rows that match a given value in a given variable with the option to select from the previous set
selectXAbove(double, boolean) - Method in class JavaGrinders.spatial.CaptureVariable
select all rows with an X value greater than the one provided
selectXAboveEqual(double, boolean) - Method in class JavaGrinders.spatial.CaptureVariable
select all rows with an X value greater or equal than the one provided
selectXBelow(double, boolean) - Method in class JavaGrinders.spatial.CaptureVariable
select all rows with an X value less than the one provided
selectXBelowEqual(double, boolean) - Method in class JavaGrinders.spatial.CaptureVariable
select all rows with an X value less or equal than the one provided
selectYAbove(double, boolean) - Method in class JavaGrinders.spatial.CaptureVariable
select all rows with a Y value greater than the one provided
selectYAboveEqual(double, boolean) - Method in class JavaGrinders.spatial.CaptureVariable
select all rows with a Y value greater or equal than the one provided
selectYBelow(double, boolean) - Method in class JavaGrinders.spatial.CaptureVariable
select all rows with a Y value less than the one provided
selectYBelowEqual(double, boolean) - Method in class JavaGrinders.spatial.CaptureVariable
select all rows with a Y value less or equal than the one provided
selectZAbove(double, boolean) - Method in class JavaGrinders.spatial.CaptureVariable
select all rows with a Z value greater than the one provided
selectZAboveEqual(double, boolean) - Method in class JavaGrinders.spatial.CaptureVariable
select all rows with a Z value greater or equal than the one provided
selectZBelow(double, boolean) - Method in class JavaGrinders.spatial.CaptureVariable
select all rows with a Z value less than the one provided
selectZBelowEqual(double, boolean) - Method in class JavaGrinders.spatial.CaptureVariable
select all rows with a Z value less or equal than the one provided
sendStartCommand() - Method in class JavaGrinders.PeripheralsControl.CMAPumpController
sends a start command to both channels of the serial device
sendStartCommand