com.compomics.util.experiment.identification
Class AScore

java.lang.Object
  extended by com.compomics.util.experiment.identification.AScore

public class AScore
extends java.lang.Object

This class scores PTM locations using the A-score.

Author:
Marc

Constructor Summary
AScore()
           
 
Method Summary
static java.util.HashMap<java.lang.Integer,java.lang.Double> getAScore(Peptide peptide, PTM ptm, MSnSpectrum spectrum, java.util.ArrayList<PeptideFragmentIon.PeptideFragmentIonType> expectedFragmentIons, java.util.HashMap<NeutralLoss,java.lang.Integer> neutralLosses, java.util.ArrayList<java.lang.Integer> charges, double intensityLimit, double mzTolerance)
           
static java.util.HashMap<java.lang.Integer,MSnSpectrum> getReducedSpectra(MSnSpectrum baseSpectrum, double mzTolerance)
           
 
Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
 

Constructor Detail

AScore

public AScore()
Method Detail

getAScore

public static java.util.HashMap<java.lang.Integer,java.lang.Double> getAScore(Peptide peptide,
                                                                              PTM ptm,
                                                                              MSnSpectrum spectrum,
                                                                              java.util.ArrayList<PeptideFragmentIon.PeptideFragmentIonType> expectedFragmentIons,
                                                                              java.util.HashMap<NeutralLoss,java.lang.Integer> neutralLosses,
                                                                              java.util.ArrayList<java.lang.Integer> charges,
                                                                              double intensityLimit,
                                                                              double mzTolerance)

getReducedSpectra

public static java.util.HashMap<java.lang.Integer,MSnSpectrum> getReducedSpectra(MSnSpectrum baseSpectrum,
                                                                                 double mzTolerance)


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