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W

Walker - Class in simulation.dynamics
Camino fibre reconstruction and tracking toolkit Walker (simulation.dynamics) describes a single brownian walker in a diffusion simulation each walker has an initial position, a current position and sums of positions during each gradient block.
Walker(double[], StepGenerator, Substrate, SyntheticScan, DataOutputStream) - Constructor for class simulation.dynamics.Walker
public constructor.
Walker(double[]) - Constructor for class simulation.dynamics.Walker
initialises a walker without a step generator.
Walker(double[], Substrate) - Constructor for class simulation.dynamics.Walker
initialises a walker without a step generator.
WalkerFactory - Class in simulation.dynamics
generate walkers of the chosen type
WalkerFactory() - Constructor for class simulation.dynamics.WalkerFactory
 
wasExtracellular - Variable in class simulation.dynamics.StickyWalker
flag to say whether the spin was initially extracellular or intracellular
WATSON - Static variable in class tractography.DT_LookupTableGenerator
 
WatsonD - Class in numerics
Description: Evaluates D_3(kappa), eqn 10.3.32 in Mardia and Jupp "Directional Statistics" (2000)
WatsonD() - Constructor for class numerics.WatsonD
 
WatsonDistribution - Class in numerics
Watson Distribution, kind of like a Fisher but for axial data, ie p(x) == p(-x).
WatsonDistribution(Vector3D, Random) - Constructor for class numerics.WatsonDistribution
 
WatsonDistribution(Vector3D, double, Random) - Constructor for class numerics.WatsonDistribution
 
WatsonFitter - Class in numerics
This class implements several routines for fitting and evaluating goodness-of-fit to a Watson distribution.
WatsonFitter() - Constructor for class numerics.WatsonFitter
 
WeightedLinearDT_Inversion - Class in inverters
Uses a weighted-linear least-squares algorithm to fit the diffusion tensor.
WeightedLinearDT_Inversion(DW_Scheme) - Constructor for class inverters.WeightedLinearDT_Inversion
The constructor requires the details of the sequence used to generate the data that will be processed.
weightedMean(double[], double[]) - Static method in class tools.ArrayOps
Returns the mean value in the array.
weightedVar(double[], double[], double) - Static method in class tools.ArrayOps
Returns the weighted variance of the values in the array.
width - Variable in class imaging.AnalyzeHeader
 
WildBootstrapDataSynth - Class in data
Provides wild bootstrap data.
WildBootstrapDataSynth(DataSource, DW_Scheme, int) - Constructor for class data.WildBootstrapDataSynth
 
WildBootstrapDataSynth(DataSource, DW_Scheme, int, int) - Constructor for class data.WildBootstrapDataSynth
 
WildBootstrapDataSynth(DataSource, DW_Scheme, int, Random) - Constructor for class data.WildBootstrapDataSynth
This is the constructor that actually does everything, so ensure that this eventually gets called.
wildBootstrapModel - Static variable in class tools.CL_Initializer
Model used in wild bootstrapping.
WildBS_DT_DataSynth - Class in data
Provides wild bootstrap data based on diffusion tensor reconstruction.
WildBS_DT_DataSynth(DataSource, DW_Scheme, int) - Constructor for class data.WildBS_DT_DataSynth
 
WildBS_DT_DataSynth(DataSource, DW_Scheme, int, int) - Constructor for class data.WildBS_DT_DataSynth
 
WildBS_DT_DataSynth(DataSource, DW_Scheme, int, Random) - Constructor for class data.WildBS_DT_DataSynth
 
WildBS_DT_TractographyImage - Class in tractography
Each call to #getPDs(int, int, int) returns a new bootstrap estimate of the PDs.
WildBS_DT_TractographyImage(float[][][][], double[], int[][][], DW_Scheme, Random) - Constructor for class tractography.WildBS_DT_TractographyImage
 
write(int) - Method in class tools.LEFilterOutputStream
Writes the specified byte value to the underlying output stream.
write(byte[], int, int) - Method in class tools.LEFilterOutputStream
Writes length bytes from the specified byte array starting at offset to the underlying output stream.
writeAnalyze(String) - Method in class misc.ScalarImage
Write the image in analyze format.
writeBoolean(boolean) - Method in class tools.LEFilterOutputStream
Writes a boolean to the underlying output stream as a single byte.
writeByte(int) - Method in class tools.LEFilterOutputStream
Writes out a byte to the underlying output stream
writeBytes(String) - Method in class tools.LEFilterOutputStream
Writes a string to the underlying output stream as a sequence of bytes.
writeChar(int) - Method in class tools.LEFilterOutputStream
Writes a two byte char to the underlying output stream in little endian order, low byte first.
writeCharacter(char) - Method in class tools.FileOutput
Write a char value to a file.
writeChars(String) - Method in class tools.LEFilterOutputStream
Writes a string to the underlying output stream as a sequence of characters.
writeConnectionMatrix(ArrayList<Integer>, ArrayList<Edge>, HashMap<Integer, String>) - Static method in class apps.ConnectivityMapping
Creates a file "ConnectionMatrix.txt" at the current location containing a matrix of connecting tracts between the ROIs
writeData(byte[]) - Method in class imaging.Nifti1Dataset
Write a byte array of data to disk, starting at vox_offset, beginning of image data.
writeDouble(double) - Method in class tools.FileOutput
Write a double value to a file.
writeDouble(double) - Method in class tools.LEFilterOutputStream
Writes an 8 byte Java double to the underlying output stream in little endian order.
writeDoubleCorrect(double) - Method in class imaging.EndianCorrectOutputStream
writeDoubleCorrect will write a double to the stream
writeFloat(float) - Method in class tools.FileOutput
Write a float value to a file.
writeFloat(float) - Method in class tools.LEFilterOutputStream
Writes a 4 byte Java float to the underlying output stream in little endian order.
writeFloatCorrect(float) - Method in class imaging.EndianCorrectOutputStream
writeFloatCorrect will write a float to the stream
writeHeader() - Method in class imaging.AnalyzeHeader
Writes header to the file.
writeHeader(String) - Method in class imaging.MetaImageHeader
Writes header to a file.
writeHeader(DataOutput) - Method in class imaging.MetaImageHeader
 
writeHeader() - Method in class imaging.Nifti1Dataset
Write header information to disk file
writeImage(String) - Method in class apps.RGB_ScalarImage
Writes this image, determines output type from extension (either .mha, .mhd or .vtk).
writeImage(int[][][], int[][][], int[][][], AnalyzeHeader, String, boolean) - Static method in class imaging.AnalyzeHeader
Writes file.hdr and file.img.
writeImage(short[][][], AnalyzeHeader, String, boolean) - Static method in class imaging.AnalyzeHeader
Writes file.hdr and file.img.
writeImage(int[][][], AnalyzeHeader, String, boolean) - Static method in class imaging.AnalyzeHeader
Writes file.hdr and file.img.
writeImage(float[][][], AnalyzeHeader, String, boolean) - Static method in class imaging.AnalyzeHeader
Writes file.hdr and file.img.
writeImage(double[][][], AnalyzeHeader, String, boolean) - Static method in class imaging.AnalyzeHeader
Writes file.hdr and file.img.
writeInt(int) - Method in class tools.LEFilterOutputStream
Writes a four-byte int to the underlying output stream in little endian order, low byte first, high byte last
writeIntCorrect(int) - Method in class imaging.EndianCorrectOutputStream
writeIntCorrect will write an int to the stream
writeInteger(int) - Method in class tools.FileOutput
Write an int value to a file.
writeLong(long) - Method in class tools.FileOutput
Write a long value to a file.
writeLong(long) - Method in class tools.LEFilterOutputStream
Writes an eight-byte long to the underlying output stream in little endian order, low byte first, high byte last
writeLongCorrect(long) - Method in class imaging.EndianCorrectOutputStream
writeLongCorrect will write a long to the stream
writeMeta(String) - Method in class apps.RGB_ScalarImage
Writes the RGB image in Meta I/O format.
writeNewline() - Method in class tools.FileOutput
Write a newline to a file.
writeOOGL_BinaryVECT(DataOutputStream) - Method in class tractography.Tract
Output as a binary OOGL vector, suitable for display in Geomview.
writeRaw(DataOutputStream) - Method in class tractography.Tract
Writes tract so that it can be read later by a TractSource.
writeRawTracts(DataOutputStream) - Method in class tractography.TractCollection
Writes tracts so that they can be read later with readTracts.
writeRGB() - Method in class apps.PD_OrientationViewer
 
writeScheme() - Method in class apps.PD_OrientationViewer
 
writeShort(int) - Method in class tools.LEFilterOutputStream
Writes a two byte short to the underlying output stream in little endian order, low byte first.
writeShortCorrect(short) - Method in class imaging.EndianCorrectOutputStream
writeShortCorrect will write a short to the stream
writeString(String) - Method in class tools.FileOutput
Write a String value to a file.
writeUTF(String) - Method in class tools.LEFilterOutputStream
Writes a string of no more than 65,535 characters to the underlying output stream using UTF-8 encoding.
writeVol(double[][][], short) - Method in class imaging.Nifti1Dataset
Write one 3D double array to disk.
writeVoxelList(DataOutputStream) - Method in class tractography.VoxelList
 
writeVTK(String) - Method in class apps.RGB_ScalarImage
Writes a VTK 2.0 (ie, not the new XML) file.
WriteZeros - Class in apps
Purpose: Write binary zeros (or any other number) to the standard output.
WriteZeros() - Constructor for class apps.WriteZeros
 
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