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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.
Constructor Summary | |
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PeptideAssumption(Peptide aPeptide,
int rank,
int advocate,
Charge identificationCharge,
double eValue,
String identificationFile)
Constructor for a peptide assumption |
Method Summary | |
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int |
getAdvocate()
get the used advocate |
int |
getC13(double precursorMZ)
Returns the distance in Da between the experimental mass and theoretic mass, image of the error between the precursor mass and the peptide monoisotopic mass (typically for the C13 option) |
double |
getDeltaMass(double precursorMZ,
boolean ppm)
Returns the precursor mass error (in ppm or Da). |
double |
getEValue()
returns the e-value assigned by the advocate |
String |
getFile()
returns the file |
Charge |
getIdentificationCharge()
Returns the charge used for identification |
Peptide |
getPeptide()
get the theoretic peptide |
int |
getRank()
Get the identification rank |
boolean |
isDecoy()
is the identification decoy? |
void |
setRank(int aRank)
Set the rank of the PeptideAssumption |
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 PeptideAssumption(Peptide aPeptide, int rank, int advocate, Charge identificationCharge, double eValue, String identificationFile)
aPeptide
- the theoretic peptiderank
- the identification rankadvocate
- the advocate usedidentificationCharge
- the charge used by the search engine for identificationeValue
- the e-valueidentificationFile
- the identification fileMethod Detail |
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public int getRank()
public Peptide getPeptide()
public int getAdvocate()
public int getC13(double precursorMZ)
precursorMZ
- the precursor m/z
public double getDeltaMass(double precursorMZ, boolean ppm)
precursorMZ
- the precursor m/zppm
- if true the error is returns in ppm, false returns the error in Da
public double getEValue()
public String getFile()
public boolean isDecoy()
public Charge getIdentificationCharge()
public void setRank(int aRank)
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