java.lang.Object
com.compomics.util.experiment.quantification.reporterion.Reagent

public class Reagent
extends Object
A reporter ion labeling reagent.
Author:
Marc Vaudel
  • Constructor Summary

    Constructors 
    Constructor Description
    Reagent()
    Empty default constructor
  • Method Summary

    Modifier and Type Method Description
    double getMinus1()
    Returns the isotopic correction factor at -1 Da.
    double getMinus2()
    Returns the isotopic correction factor at -2 Da.
    String getName()
    Returns the name of the reagent.
    double getPlus1()
    Returns the isotopic correction factor at +1 Da.
    double getPlus2()
    Returns the isotopic correction factor at +2 Da.
    double getRef()
    Returns the value used as reference for the correction factors.
    ReporterIon getReporterIon()
    Returns the reporter ion to look for in the spectrum.
    void setMinus1​(double minus1)
    Sets the isotopic correction factor at -1 Da.
    void setMinus2​(double minus2)
    Sets the isotopic correction factor at -2 Da.
    void setName​(String name)
    Sets the name of the reagent.
    void setPlus1​(double plus1)
    Sets the isotopic correction factor at +1 Da.
    void setPlus2​(double plus2)
    Sets the isotopic correction factor at +2 Da.
    void setRef​(double ref)
    Sets the value used as reference for the correction factors.
    void setReporterIon​(ReporterIon reporterIon)
    Sets the reporter ion to look for in the spectrum.

    Methods inherited from class java.lang.Object

    clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
  • Constructor Details

    • Reagent

      public Reagent()
      Empty default constructor
  • Method Details

    • getName

      public String getName()
      Returns the name of the reagent.
      Returns:
      the name of the reagent
    • setName

      public void setName​(String name)
      Sets the name of the reagent.
      Parameters:
      name - the name of the reagent
    • getReporterIon

      public ReporterIon getReporterIon()
      Returns the reporter ion to look for in the spectrum.
      Returns:
      the reporter ion to look for in the spectrum
    • setReporterIon

      public void setReporterIon​(ReporterIon reporterIon)
      Sets the reporter ion to look for in the spectrum.
      Parameters:
      reporterIon - the reporter ion to look for in the spectrum
    • getMinus2

      public double getMinus2()
      Returns the isotopic correction factor at -2 Da.
      Returns:
      the isotopic correction factor at -2 Da
    • setMinus2

      public void setMinus2​(double minus2)
      Sets the isotopic correction factor at -2 Da.
      Parameters:
      minus2 - the isotopic correction factor at -2 Da
    • getMinus1

      public double getMinus1()
      Returns the isotopic correction factor at -1 Da.
      Returns:
      the isotopic correction factor at -1 Da
    • setMinus1

      public void setMinus1​(double minus1)
      Sets the isotopic correction factor at -1 Da.
      Parameters:
      minus1 - the isotopic correction factor at -1 Da
    • getRef

      public double getRef()
      Returns the value used as reference for the correction factors.
      Returns:
      the value used as reference for the correction factors
    • setRef

      public void setRef​(double ref)
      Sets the value used as reference for the correction factors.
      Parameters:
      ref - the value used as reference for the correction factors
    • getPlus1

      public double getPlus1()
      Returns the isotopic correction factor at +1 Da.
      Returns:
      the isotopic correction factor at +1 Da
    • setPlus1

      public void setPlus1​(double plus1)
      Sets the isotopic correction factor at +1 Da.
      Parameters:
      plus1 - the isotopic correction factor at +1 Da
    • getPlus2

      public double getPlus2()
      Returns the isotopic correction factor at +2 Da.
      Returns:
      the isotopic correction factor at +2 Da
    • setPlus2

      public void setPlus2​(double plus2)
      Sets the isotopic correction factor at +2 Da.
      Parameters:
      plus2 - the isotopic correction factor at +2 Da