org.fhcrc.cpl.viewer.feature.extraction.strategy
Class FeatureStrategyPeakClusters

java.lang.Object
  org.fhcrc.cpl.viewer.feature.extraction.strategy.BaseFeatureStrategy
      org.fhcrc.cpl.viewer.feature.extraction.strategy.FeatureStrategyWindow
          org.fhcrc.cpl.viewer.feature.extraction.strategy.BaseFeatureStrategyModular
              org.fhcrc.cpl.viewer.feature.extraction.strategy.FeatureStrategyPeakClusters

All Implemented Interfaces:

FeatureStrategy

Direct Known Subclasses:

FeatureStrategyPeakClustersNegCharge

public class FeatureStrategyPeakClusters
extends BaseFeatureStrategyModular

Adapted from FeatureStrategyPeakClusters, created by Matt Bellew

Nested Class Summary

Nested classes/interfaces inherited from class org.fhcrc.cpl.viewer.feature.extraction.strategy.BaseFeatureStrategy

BaseFeatureStrategy.StatusListener

Field Summary

Fields inherited from class org.fhcrc.cpl.viewer.feature.extraction.strategy.BaseFeatureStrategyModular

_resamplingFrequency, peakCombiner, peakExtractor, peakRidgeWalkSmoothed, timerAnalyze, timerExtractPeaks, timerExtractPeptides, WINDOW_MARGIN

Fields inherited from class org.fhcrc.cpl.viewer.feature.extraction.strategy.FeatureStrategyWindow

_endScanNum, _scans, _startScanNum, _WindowMargin, _windowWidth, DEFAULT_WINDOW_WIDTH

Fields inherited from class org.fhcrc.cpl.viewer.feature.extraction.strategy.BaseFeatureStrategy

_dumpWindowSize, _endScan, _keepStatistics, _maxCharge, _mzRange, _run, _scanCount, _sn, _startScan, _status, timerResample

Fields inherited from interface org.fhcrc.cpl.viewer.feature.extraction.strategy.FeatureStrategy

DEFAULT_RESAMPLING_FREQUENCY

Constructor Summary

FeatureStrategyPeakClusters()

Method Summary

void	init(MSRun run, int startScan, int scanCount, int maxCharge, FloatRange mzRange, boolean plotStatistics) Plug in the peak combiner and peak extractor
void	plotStatistics() Can be overridden

Methods inherited from class org.fhcrc.cpl.viewer.feature.extraction.strategy.BaseFeatureStrategyModular

findPeptidesIn2DWindow, getPeakCombiner, getPeakExtractor, isPeakRidgeWalkSmoothed, setPeakCombiner, setPeakExtractor, setPeakRidgeWalkSmoothed

Methods inherited from class org.fhcrc.cpl.viewer.feature.extraction.strategy.FeatureStrategyWindow

analyzeWindow, dumpWindow, findPeptides, getWindowWidth, setWindowWidth

Methods inherited from class org.fhcrc.cpl.viewer.feature.extraction.strategy.BaseFeatureStrategy

getDumpWindowSize, getInstance, getResamplingFrequency, isKeepStatistics, resampleSpectra, setDumpWindowSize, setKeepStatistics, setResamplingFrequency, setStatusListener

Methods inherited from class java.lang.Object

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

Constructor Detail

FeatureStrategyPeakClusters

public FeatureStrategyPeakClusters()

Method Detail

init

public void init(MSRun run,
                 int startScan,
                 int scanCount,
                 int maxCharge,
                 FloatRange mzRange,
                 boolean plotStatistics)

Plug in the peak combiner and peak extractor

Specified by:

init in interface FeatureStrategy

Overrides:

init in class FeatureStrategyWindow

Parameters:

run -

startScan -

scanCount -

maxCharge -

mzRange -

plotStatistics

public void plotStatistics()

Description copied from class: BaseFeatureStrategy

Can be overridden

Specified by:

plotStatistics in interface FeatureStrategy

Overrides:

plotStatistics in class BaseFeatureStrategy