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Packages that use IonMatch | |
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com.compomics.util.experiment.identification | This package contains experiment classes related to identifications. |
com.compomics.util.experiment.quantification.reporterion.quantification | This package contains experiment classes related to quantification by reporter ions. |
com.compomics.util.gui.spectrum | This package contains GUI classes related to Spectrum and Chromatogram visualization. |
Uses of IonMatch in com.compomics.util.experiment.identification |
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Methods in com.compomics.util.experiment.identification that return types with arguments of type IonMatch | |
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HashMap<String,HashMap<Integer,IonMatch>> |
SpectrumAnnotator.SpectrumAnnotationMap.getAnnotations()
Returns the actual annotations "hidden" inside the SpectrumAnnotationMap object. |
HashSet<IonMatch> |
PeptideAssumption.getAnnotations()
retrieves all fragment ion annotation |
ArrayList<IonMatch> |
SpectrumAnnotator.matchPeak(Peptide peptide,
Peak peak,
double massTolerance,
Charge charge)
This method matches the potential fragment ions of a given peptide with a given peak. |
Methods in com.compomics.util.experiment.identification with parameters of type IonMatch | |
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void |
PeptideAssumption.addAnnotation(IonMatch ionMatch)
add a fragment ion annotation |
Constructor parameters in com.compomics.util.experiment.identification with type arguments of type IonMatch | |
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SpectrumAnnotator.SpectrumAnnotationMap(HashMap<String,HashMap<Integer,IonMatch>> annotations)
Create a new SpectrumAnnotationMap. |
Uses of IonMatch in com.compomics.util.experiment.quantification.reporterion.quantification |
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Methods in com.compomics.util.experiment.quantification.reporterion.quantification that return types with arguments of type IonMatch | |
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HashMap<Integer,IonMatch> |
PsmQuantification.getReporterMatches()
Getter for the reporter matches |
Methods in com.compomics.util.experiment.quantification.reporterion.quantification with parameters of type IonMatch | |
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void |
PsmQuantification.addIonMatch(int reporterIndex,
IonMatch match)
Method to add a match between a peak and a reporter ion |
Uses of IonMatch in com.compomics.util.gui.spectrum |
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Constructor parameters in com.compomics.util.gui.spectrum with type arguments of type IonMatch | |
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SequenceFragmentationPanel(String aSequence,
ArrayList<IonMatch> aIonMatches,
boolean boolModifiedSequence)
Creates a new SequenceFragmentationPanel. |
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