Package com.compomics.util.experiment.identification.peptide_fragmentation.models.ms2pip.features_configuration.features.generic

Class AAPropertyFeature

java.lang.Object

com.compomics.util.experiment.identification.peptide_fragmentation.models.ms2pip.features_configuration.features.generic.AAPropertyFeature

All Implemented Interfaces:

Ms2pipFeature, SingleAAPropertyFeature

Direct Known Subclasses:

AAPropertyFeatureAbsolute, AAPropertyFeatureRelative

public abstract class AAPropertyFeature
extends Object
implements Ms2pipFeature, SingleAAPropertyFeature

Feature based on an amino acid property.

Author:

Marc Vaudel

Field Summary

Fields

Modifier and Type	Field	Description
protected int	aaIndex	The index on the sequence.
protected AminoAcid.Property	aminoAcidProperty	The property of the amino acids to consider.

Fields inherited from interface com.compomics.util.experiment.identification.peptide_fragmentation.models.ms2pip.features_configuration.Ms2pipFeature

implementations

Constructor Summary

Constructors

Constructor	Description
AAPropertyFeature()	Empty default constructor

Method Summary

Modifier and Type	Method	Description
int	getAaIndex()	Returns the index on the sequence.
AminoAcid.Property	getAminoAcidProperty()	Returns the amino acid property to consider.
void	setAaIndex(int aaIndex)	Sets the index on the sequence.
void	setAminoAcidProperty(AminoAcid.Property aminoAcidProperty)	Sets the amino acid property to consider.

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Methods inherited from interface com.compomics.util.experiment.identification.peptide_fragmentation.models.ms2pip.features_configuration.Ms2pipFeature

getCategory, getDescription, getIndex

Field Details

aaIndex

protected int aaIndex

The index on the sequence.

aminoAcidProperty

protected AminoAcid.Property aminoAcidProperty

The property of the amino acids to consider.

Constructor Details

AAPropertyFeature

public AAPropertyFeature()

Empty default constructor

Method Details

getAaIndex

public int getAaIndex()

Returns the index on the sequence.

Returns:

the index on the sequence

setAaIndex

public void setAaIndex(int aaIndex)

Sets the index on the sequence.

Parameters:

aaIndex - the index on the sequence

getAminoAcidProperty

public AminoAcid.Property getAminoAcidProperty()

Description copied from interface: SingleAAPropertyFeature

Returns the amino acid property to consider.

Specified by:

getAminoAcidProperty in interface SingleAAPropertyFeature

Returns:

the amino acid property to consider

setAminoAcidProperty

public void setAminoAcidProperty(AminoAcid.Property aminoAcidProperty)

Description copied from interface: SingleAAPropertyFeature

Sets the amino acid property to consider.

Specified by:

setAminoAcidProperty in interface SingleAAPropertyFeature

Parameters:

aminoAcidProperty - the amino acid property to consider