pal.alignment.BootstrappedAlignment

All Implemented Interfaces:: Serializable, Alignment, IdGroup, Report

public class BootstrappedAlignment extends AbstractAlignment

generates bootstrapped alignments from a raw alignment

Version:

$Id: BootstrappedAlignment.java,v 1.6 2003/03/23 00:12:57 matt Exp $

Author:

Korbinian Strimmer

See Also:

Nested Class Summary

Nested classes/interfaces inherited from interface pal.misc.IdGroup
IdGroup.Utils
Field Summary

Fields inherited from class pal.alignment.AbstractAlignment
idGroup, numSeqs, numSites

Fields inherited from interface pal.alignment.Alignment
GAP, GAP_TLA, GAPS, UNKNOWN, UNKNOWN_TLA
Constructor Summary

Constructors

Constructor

Description

BootstrappedAlignment(Alignment raw)

Constructor
Method Summary

Modifier and Type

Method

Description

void

bootstrap()

bootstrap alignment

char

getData(int seq, int site)

sequence alignment at (sequence, site)

Methods inherited from class pal.alignment.AbstractAlignment
getAlignedSequenceString, getChar, getDataType, getIdCount, getIdentifier, getLength, getSequenceCount, getSiteCount, getState, getStates, guessDataType, isGap, isUnknownState, report, setDataType, setIdentifier, toString, whichIdNumber

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Class BootstrappedAlignment

Nested Class Summary