org.forester.development
Class SimpleMutableMsa

java.lang.Object
  extended by org.forester.development.SimpleMutableMsa
All Implemented Interfaces:
Msa

public class SimpleMutableMsa
extends Object
implements Msa


Constructor Summary
SimpleMutableMsa(String[] names, String[] seqs)
           
 
Method Summary
 void deleteResidueAt(int col, int row)
           
 double getGapScore()
           
 int getLength()
           
 int getNumberOfSequences()
           
 char getResidueAt(int col, int row)
           
 double getScore()
           
 Sequence getSequence(int i)
           
 void insertResidueAt(int col, int row)
           
 
Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
 

Constructor Detail

SimpleMutableMsa

public SimpleMutableMsa(String[] names,
                        String[] seqs)
Method Detail

deleteResidueAt

public void deleteResidueAt(int col,
                            int row)

getGapScore

public double getGapScore()

getLength

public int getLength()
Specified by:
getLength in interface Msa

getNumberOfSequences

public int getNumberOfSequences()
Specified by:
getNumberOfSequences in interface Msa

getResidueAt

public char getResidueAt(int col,
                         int row)
Specified by:
getResidueAt in interface Msa

getScore

public double getScore()

getSequence

public Sequence getSequence(int i)
Specified by:
getSequence in interface Msa

insertResidueAt

public void insertResidueAt(int col,
                            int row)