pal.alignment
Class BootstrappedAlignment

java.lang.Object
  |
  +--pal.alignment.AbstractAlignment
        |
        +--pal.alignment.BootstrappedAlignment
All Implemented Interfaces:
Alignment, IdGroup, Report, java.io.Serializable

public class BootstrappedAlignment
extends AbstractAlignment

generates bootstrapped alignments from a raw alignment

See Also:
Serialized Form

Fields inherited from class pal.alignment.AbstractAlignment
dataType, frequency, idGroup, numSeqs, numSites
 
Fields inherited from interface pal.alignment.Alignment
GAP
 
Constructor Summary
BootstrappedAlignment(Alignment raw)
          Constructor
 
Method Summary
 void bootstrap()
          bootstrap alignment
 char getData(int seq, int site)
          sequence alignment at (sequence, site)
 
Methods inherited from class pal.alignment.AbstractAlignment
getAlignedSequenceString, getDataType, getFrequency, getIdCount, getIdentifier, getLength, getSequenceCount, getSiteCount, getStates, guessDataType, isGap, report, setDataType, setFrequency, setIdentifier, toString, whichIdNumber
 
Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait
 

Constructor Detail

BootstrappedAlignment

public BootstrappedAlignment(Alignment raw)
Constructor
Parameters:
raw - original alignment
Method Detail

getData

public char getData(int seq,
                    int site)
sequence alignment at (sequence, site)
Overrides:
getData in class AbstractAlignment

bootstrap

public void bootstrap()
bootstrap alignment