de.zimek.proteinfeatures.attributeAssigner.dingAttributes
Class DingAttribute

java.lang.Object
  de.zimek.proteinfeatures.attributeAssigner.AbstractArffRealAttributeAssigner
      de.zimek.proteinfeatures.attributeAssigner.dingAttributes.DingAttribute

All Implemented Interfaces:

ArffAttributeAssigner

Direct Known Subclasses:

DingCompositionLength, DingHydrophobicity, DingPolarity, DingPolarizability, DingSecondary, DingVolume

public abstract class DingAttribute

extends AbstractArffRealAttributeAssigner

Author:

Arthur Zimek

Field Summary

protected java.lang.String	attributeName
protected java.util.Map	ID2ATTRIBUTES
protected boolean	includeLength Whether to include length of protein in the attribute set.
protected java.lang.String[]	postfix
protected java.lang.String	uri

Fields inherited from class de.zimek.proteinfeatures.attributeAssigner.AbstractArffRealAttributeAssigner

WHITESPACE

Fields inherited from interface de.zimek.proteinfeatures.attributeAssigner.ArffAttributeAssigner

ATTRIBUTE_MARK

Constructor Summary

DingAttribute()

Method Summary

protected double[]	attributes(Protein protein) Returns the attributes according to the actual attribute-assigner.
java.lang.String	getAttributeDefinition() Provides the attribute-definition in arff-format with an ending newline.
protected void	init()

Methods inherited from class de.zimek.proteinfeatures.attributeAssigner.AbstractArffRealAttributeAssigner

getAttribute

Methods inherited from class java.lang.Object

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

Field Detail

uri

protected java.lang.String uri

postfix

protected java.lang.String[] postfix

attributeName

protected java.lang.String attributeName

includeLength

protected boolean includeLength

Whether to include length of protein in the attribute set. Length of protein is the last attribute in each attribute set as provided by Ding and Dubchak. It shall only be included in composition, thus each attribute set wil be of length 21.

ID2ATTRIBUTES

protected final java.util.Map ID2ATTRIBUTES

Constructor Detail

DingAttribute

public DingAttribute()

Method Detail

init

protected void init()

attributes

protected double[] attributes(Protein protein)

Description copied from class: AbstractArffRealAttributeAssigner

Returns the attributes according to the actual attribute-assigner.

Specified by:

attributes in class AbstractArffRealAttributeAssigner

Parameters:

protein -

Returns:

double[]

See Also:

AbstractArffRealAttributeAssigner.attributes(de.zimek.proteinfeatures.protein.Protein)

getAttributeDefinition

public java.lang.String getAttributeDefinition()

Description copied from interface: ArffAttributeAssigner

Provides the attribute-definition in arff-format with an ending newline.

Returns:

String

See Also:

ArffAttributeAssigner.getAttributeDefinition()