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java.lang.Objectcom.compomics.util.experiment.personalization.ExperimentObject
com.compomics.util.experiment.quantification.QuantificationMatch
com.compomics.util.experiment.quantification.matches.PsmQuantification
public class PsmQuantification
This class models the quantification of a spectrum.
Nested Class Summary |
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Nested classes/interfaces inherited from class com.compomics.util.experiment.quantification.QuantificationMatch |
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QuantificationMatch.MatchType |
Field Summary |
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Fields inherited from class com.compomics.util.experiment.quantification.QuantificationMatch |
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ratios |
Constructor Summary | |
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PsmQuantification(String spectrumKey,
String spectrumMatchKey)
Constructor for a spectrumQuantification |
Method Summary | |
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void |
addIonMatch(int reporterIndex,
IonMatch match)
Method to add a match between a peak and a reporter ion |
HashMap<Integer,Double> |
getDeisotopedIntensities()
returns the deisotoped intensities |
String |
getKey()
Returns the key of a match. |
double |
getReferenceIntensity()
Returns the reference intensity used to estimate the ratios |
HashMap<Integer,IonMatch> |
getReporterMatches()
Getter for the reporter matches |
String |
getSpectrumMatchKey()
Getter for the key of the spectrum match |
QuantificationMatch.MatchType |
getType()
Returns the type of a match |
void |
setDeisotopedIntensities(HashMap<Integer,Double> deisotopedIntensities)
Sets the deisotoped intensities |
void |
setReferenceIntensity(double referenceIntensity)
Sets the reference intensity used to estimate the ratios |
Methods inherited from class com.compomics.util.experiment.quantification.QuantificationMatch |
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addRatio, getRatios, setRatios |
Methods inherited from class com.compomics.util.experiment.personalization.ExperimentObject |
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addUrParam, getParameterKey, getUrParam |
Methods inherited from class java.lang.Object |
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clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Constructor Detail |
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public PsmQuantification(String spectrumKey, String spectrumMatchKey)
spectrumKey
- the corresponding spectrum keyspectrumMatchKey
- the corresponding spectrum match keyMethod Detail |
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public void addIonMatch(int reporterIndex, IonMatch match)
reporterIndex
- static index of the reporter ionmatch
- The corresponding ion matchpublic String getKey()
QuantificationMatch
getKey
in class QuantificationMatch
public String getSpectrumMatchKey()
public HashMap<Integer,IonMatch> getReporterMatches()
public HashMap<Integer,Double> getDeisotopedIntensities()
public void setDeisotopedIntensities(HashMap<Integer,Double> deisotopedIntensities)
deisotopedIntensities
- the deisotoped intensitiespublic double getReferenceIntensity()
public void setReferenceIntensity(double referenceIntensity)
referenceIntensity
- the reference intensity used to estimate the ratiospublic QuantificationMatch.MatchType getType()
QuantificationMatch
getType
in class QuantificationMatch
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