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java.lang.Objectcom.compomics.util.experiment.personalization.ExperimentObject
com.compomics.util.experiment.identification.PeptideAssumption
public class PeptideAssumption
This object will models the assumption made by an advocate. Created by IntelliJ IDEA. User: Marc Date: Jun 25, 2010 Time: 2:45:46 PM
Constructor Summary | |
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PeptideAssumption(Peptide aPeptide,
int rank,
int advocate,
double measuredMass,
double eValue,
String identificationFile)
Constructor for a peptide assumption |
Method Summary | |
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void |
addAnnotation(IonMatch ionMatch)
add a fragment ion annotation |
int |
getAdvocate()
get the used advocate |
HashSet<IonMatch> |
getAnnotations()
retrieves all fragment ion annotation |
int |
getC13()
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double |
getDeltaMass()
returns the precursor mass error (in ppm) |
double |
getEValue()
returns the e-value assigned by the advocate |
String |
getFile()
returns the file |
double |
getMeasuredMass()
Returns the measured precursor mass according to the search engine |
Peptide |
getPeptide()
get the theoretic peptide |
int |
getRank()
Get the identification rank |
boolean |
isDecoy()
is the identification decoy? |
Methods inherited from class com.compomics.util.experiment.personalization.ExperimentObject |
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addUrParam, 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 PeptideAssumption(Peptide aPeptide, int rank, int advocate, double measuredMass, double eValue, String identificationFile)
aPeptide
- the theoretic peptiderank
- the identification rankadvocate
- the advocate usedmeasuredMass
- the precursor measured masseValue
- the e-valueidentificationFile
- the identification fileMethod Detail |
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public int getRank()
public Peptide getPeptide()
public int getAdvocate()
public double getMeasuredMass()
public int getC13()
public double getDeltaMass()
public double getEValue()
public void addAnnotation(IonMatch ionMatch)
ionMatch
- an ion matchpublic HashSet<IonMatch> getAnnotations()
public String getFile()
public boolean isDecoy()
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