org.fhcrc.cpl.viewer.feature
Class FeatureStrategyUsingWindow2D

java.lang.Object
  org.fhcrc.cpl.viewer.feature.FeatureExtractor
      org.fhcrc.cpl.viewer.feature.FeatureStrategyUsingWindow
          org.fhcrc.cpl.viewer.feature.FeatureStrategyUsingWindow2D

Direct Known Subclasses:

FeatureStrategyWavelet2D

public class FeatureStrategyUsingWindow2D
extends FeatureStrategyUsingWindow

User: mbellew Date: Sep 7, 2004 Time: 12:10:06 PM

Obviously this is WAY to slow to run for the whole file, this is to just test an idea.

Nested Class Summary

Nested classes/interfaces inherited from class org.fhcrc.cpl.viewer.feature.FeatureExtractor

FeatureExtractor.StatusListener

Field Summary

Fields inherited from class org.fhcrc.cpl.viewer.feature.FeatureStrategyUsingWindow

_noise

Fields inherited from class org.fhcrc.cpl.viewer.feature.FeatureExtractor

_dumpWindowSize, _maxCharge, _mzRange, _run, _scanCount, _sn, _startScan, _status, DEFAULT_EXTRACTOR_PROPERTYNAME, TYPE_1D, TYPE_2D

Constructor Summary

FeatureStrategyUsingWindow2D(MSRun run, int scanIndex, int count, int maxCharge, FloatRange range, double sn)

Method Summary

Feature[]	_analyze()
protected java.util.Collection	analyze2D(Scan[] scans)
protected Spectrum.Peak[]	ExtractPeaks(Scan[] scans)
static Spectrum.Peak[]	FilterPeakSet(Spectrum.Peak[] interestingPeaks, Spectrum.Peak[] peaks, MSRun run, int scanRange)
int	getType()
protected Spectrum.Peak[]	InterestingFeatures(Scan[] scans)

Methods inherited from class org.fhcrc.cpl.viewer.feature.FeatureStrategyUsingWindow

_logDebug, _pickPeaks, _smooth, analyze1D, ExtractPeptideFeatures, ScoreFeature

Methods inherited from class org.fhcrc.cpl.viewer.feature.FeatureExtractor

analyze, analyzeScanAtATime, analyzeWindow, CombineScans, getAccurateMassAdjustmentScans, getDefault, getDefaultClass, getDumpWindowSize, getMzExtractionRange, getMzExtractionRange, getScans, setAccurateMassAdjustmentScans, setDefault, setDumpWindowSize, setStatusListener

Methods inherited from class java.lang.Object

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

Constructor Detail

FeatureStrategyUsingWindow2D

public FeatureStrategyUsingWindow2D(MSRun run,
                                    int scanIndex,
                                    int count,
                                    int maxCharge,
                                    FloatRange range,
                                    double sn)

Method Detail

_analyze

public Feature[] _analyze()
                   throws java.lang.InterruptedException

Overrides:

_analyze in class FeatureStrategyUsingWindow

Throws:

java.lang.InterruptedException

analyze2D

protected java.util.Collection analyze2D(Scan[] scans)

Overrides:

analyze2D in class FeatureExtractor

FilterPeakSet

public static Spectrum.Peak[] FilterPeakSet(Spectrum.Peak[] interestingPeaks,
                                            Spectrum.Peak[] peaks,
                                            MSRun run,
                                            int scanRange)

InterestingFeatures

protected Spectrum.Peak[] InterestingFeatures(Scan[] scans)

ExtractPeaks

protected Spectrum.Peak[] ExtractPeaks(Scan[] scans)

getType

public int getType()

Overrides:

getType in class FeatureExtractor