Package com.compomics.util.experiment.quantification.reporterion

Class Reagent

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