edu.jhu.ece.iacl.algorithms.dti.tractography
Class FiberStatistics

java.lang.Object
  edu.jhu.ece.iacl.algorithms.dti.tractography.FiberStatistics

public class FiberStatistics
extends java.lang.Object

Constructor Summary

FiberStatistics()

FiberStatistics(FiberCollection fibers)

FiberStatistics(java.util.Vector<Fiber> fibers)

Method Summary

void	computeDirection()
void	computeLengths()
void	computeNumPts()
double	computeVolumeAverage(ImageDataMipav vol)
ImageData	fibers2Volume(java.lang.String stat, ImageData template)
java.util.Vector<Fiber>	filterTractByVolumeStatPercent()
java.util.Vector<Fiber>	filterTractByVolumeStatThresh(ImageDataMipav vol, double thresh)
void	finalize()
void	findTractVolumeStats(ImageData vol)
static double[][]	getFiberDataWithMax(Fiber f, ImageData mems)
java.util.ArrayList<java.lang.Double>	getFiberLengths()
java.util.ArrayList<java.lang.Double>	getMaxFromVolume()
java.util.ArrayList<java.lang.Double>	getMeanFromVolume()
java.util.ArrayList<java.lang.Double>	getMedianFromVolume()
java.util.ArrayList<java.lang.Double>	getMinFromVolume()
Point3f	getRes()
java.util.ArrayList<java.lang.Double>	getSumFromVolume()
java.util.ArrayList<GridPt>	getTractVoxSet()
static java.util.Vector<Tract>	segmentTractFromData(java.util.Vector<Fiber> fibers, double[][] data, double datthresh, int lengththresh)
static java.util.Vector<Tract>	segmentTractFromMemberships(java.util.Vector<Fiber> fibers, ImageData mems, double datthresh, int lengththresh, double homogthresh)
void	setFibers(FiberCollection fibers)
void	setFibers(java.util.Vector<Fiber> fibers)
void	setRes(double resX, double resY, double resZ)

Methods inherited from class java.lang.Object

clone, equals, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

FiberStatistics

public FiberStatistics()

FiberStatistics

public FiberStatistics(java.util.Vector<Fiber> fibers)

FiberStatistics

public FiberStatistics(FiberCollection fibers)

Method Detail

setFibers

public void setFibers(java.util.Vector<Fiber> fibers)

setFibers

public void setFibers(FiberCollection fibers)

setRes

public void setRes(double resX,
                   double resY,
                   double resZ)

getRes

public Point3f getRes()

computeDirection

public void computeDirection()

computeLengths

public void computeLengths()

computeNumPts

public void computeNumPts()

getTractVoxSet

public java.util.ArrayList<GridPt> getTractVoxSet()

computeVolumeAverage

public double computeVolumeAverage(ImageDataMipav vol)

findTractVolumeStats

public void findTractVolumeStats(ImageData vol)

getSumFromVolume

public java.util.ArrayList<java.lang.Double> getSumFromVolume()

getMeanFromVolume

public java.util.ArrayList<java.lang.Double> getMeanFromVolume()

getMaxFromVolume

public java.util.ArrayList<java.lang.Double> getMaxFromVolume()

getMinFromVolume

public java.util.ArrayList<java.lang.Double> getMinFromVolume()

getMedianFromVolume

public java.util.ArrayList<java.lang.Double> getMedianFromVolume()

getFiberLengths

public java.util.ArrayList<java.lang.Double> getFiberLengths()

filterTractByVolumeStatPercent

public java.util.Vector<Fiber> filterTractByVolumeStatPercent()

filterTractByVolumeStatThresh

public java.util.Vector<Fiber> filterTractByVolumeStatThresh(ImageDataMipav vol,
                                                             double thresh)

segmentTractFromData

public static java.util.Vector<Tract> segmentTractFromData(java.util.Vector<Fiber> fibers,
                                                           double[][] data,
                                                           double datthresh,
                                                           int lengththresh)

getFiberDataWithMax

public static double[][] getFiberDataWithMax(Fiber f,
                                             ImageData mems)

segmentTractFromMemberships

public static java.util.Vector<Tract> segmentTractFromMemberships(java.util.Vector<Fiber> fibers,
                                                                  ImageData mems,
                                                                  double datthresh,
                                                                  int lengththresh,
                                                                  double homogthresh)

fibers2Volume

public ImageData fibers2Volume(java.lang.String stat,
                               ImageData template)

finalize

public void finalize()

Overrides:

finalize in class java.lang.Object