org.biojava.nbio.structure.symmetry.utils

Class BlastClustReader

java.lang.Object

org.biojava.nbio.structure.symmetry.utils.BlastClustReader

All Implemented Interfaces:

java.io.Serializable

public class BlastClustReader
extends java.lang.Object
implements java.io.Serializable

See Also:

Serialized Form

Constructor Summary

Constructors

Constructor and Description
BlastClustReader(int sequenceIdentity)

Method Summary

Modifier and Type	Method and Description
java.util.List<java.util.List<java.lang.String>>	getChainIdsInEntry(java.lang.String pdbId)
java.util.List<java.util.List<java.lang.String>>	getPdbChainIdClusters()
java.util.List<java.util.List<java.lang.String>>	getPdbChainIdClusters(java.lang.String pdbId)
java.lang.String	getRepresentativeChain(java.lang.String pdbId, java.lang.String chainId)
java.util.Map<java.lang.String,java.lang.String>	getRepresentatives(java.lang.String pdbId)
int	indexOf(java.lang.String pdbId, java.lang.String chainId)

Methods inherited from class java.lang.Object

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

Constructor Detail

BlastClustReader

public BlastClustReader(int sequenceIdentity)

Method Detail

getPdbChainIdClusters

public java.util.List<java.util.List<java.lang.String>> getPdbChainIdClusters()

getRepresentatives

public java.util.Map<java.lang.String,java.lang.String> getRepresentatives(java.lang.String pdbId)

getRepresentativeChain

public java.lang.String getRepresentativeChain(java.lang.String pdbId,
                                               java.lang.String chainId)

indexOf

public int indexOf(java.lang.String pdbId,
                   java.lang.String chainId)

getPdbChainIdClusters

public java.util.List<java.util.List<java.lang.String>> getPdbChainIdClusters(java.lang.String pdbId)

getChainIdsInEntry

public java.util.List<java.util.List<java.lang.String>> getChainIdsInEntry(java.lang.String pdbId)