org.biojava.nbio.core.alignment.matrices

Class DefaultAAIndexProvider

java.lang.Object

org.biojava.nbio.core.alignment.matrices.DefaultAAIndexProvider

All Implemented Interfaces:

AAIndexProvider

public class DefaultAAIndexProvider
extends Object
implements AAIndexProvider

The default provider for AAINDEX loads substitution matrices from the AAINDEX file in the resources directory

Author:

Andreas Prlic

Constructor Summary

Constructors

Constructor and Description
DefaultAAIndexProvider()

Method Summary

Methods

Modifier and Type	Method and Description
InputStream	getInputStreamToAAindexFile()
SubstitutionMatrix<AminoAcidCompound>	getMatrix(String matrixName)

Methods inherited from class java.lang.Object

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

Constructor Detail

DefaultAAIndexProvider

public DefaultAAIndexProvider()

Method Detail

getMatrix

public SubstitutionMatrix<AminoAcidCompound> getMatrix(String matrixName)

Specified by:

getMatrix in interface AAIndexProvider

getInputStreamToAAindexFile

public InputStream getInputStreamToAAindexFile()