util
Class SequenceOrderer

java.lang.Object
  extended by util.SequenceOrderer

public class SequenceOrderer
extends java.lang.Object

This helper class puts the sequence in order, so that they are put into cluster groups. It is used for the display of the subfamilies.


Constructor Summary
SequenceOrderer(AlignObject alignObj, S3DetObject s3detobj)
          Constructor of the SequenceOrderer.
 
Method Summary
 ClusterGroup[] getClusterGroups()
          Retrieve the cluster groups from the sequences and the S3Det method.
 SequenceImpl[] getClusterSequences()
          Returns all the sequences in the clustered order
 
Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
 

Constructor Detail

SequenceOrderer

public SequenceOrderer(AlignObject alignObj,
                       S3DetObject s3detobj)
Constructor of the SequenceOrderer.

Parameters:
alignObj -
s3detobj -
Method Detail

getClusterGroups

public ClusterGroup[] getClusterGroups()
Retrieve the cluster groups from the sequences and the S3Det method.

Returns:
clusterGroups ClusterGroup[]

getClusterSequences

public SequenceImpl[] getClusterSequences()
Returns all the sequences in the clustered order

Returns:
sequence