org.fhcrc.cpl.viewer.feature
Class FeatureStrategyPeaks

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

public class FeatureStrategyPeaks
extends FeatureStrategyUsingWindow

User: mbellew Date: Nov 2, 2004 This is meant to represent the peaks used in FeatureStrategyCombined

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

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

Method Summary

Feature[]	_analyze()
protected java.util.Collection	analyze1D(Scan scan) THIS IS THE MAIN FEATURE FINDING ROUTINE
protected java.util.Collection	analyze2D(Scan[] scans)
int	getType()

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

_logDebug, _pickPeaks, _smooth, 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

FeatureStrategyPeaks

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

Method Detail

getType

public int getType()

Overrides:

getType in class FeatureExtractor

_analyze

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

Overrides:

_analyze in class FeatureStrategyUsingWindow

Throws:

java.lang.InterruptedException

analyze1D

protected java.util.Collection analyze1D(Scan scan)

THIS IS THE MAIN FEATURE FINDING ROUTINE

Overrides:

analyze1D in class FeatureStrategyUsingWindow

analyze2D

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

Overrides:

analyze2D in class FeatureExtractor