jebl.evolution.align.scores

Class JukesCantor

java.lang.Object

jebl.evolution.align.scores.Scores

jebl.evolution.align.scores.NucleotideScores

jebl.evolution.align.scores.JukesCantor

All Implemented Interfaces:

ScoreMatrix

public class JukesCantor
extends NucleotideScores

Jukes Cantor assumes equal substitution frequencies and equal nucleotide equilibrium frequencies.

Version:

$Id: JukesCantor.java 319 2006-05-04 00:16:20Z matt_kearse $

Author:

Richard Moir

Field Summary

Fields inherited from class jebl.evolution.align.scores.NucleotideScores

CLUSTALW, IUB

Fields inherited from class jebl.evolution.align.scores.Scores

score

Constructor Summary

Constructors

Constructor and Description
JukesCantor(float d)

Method Summary

Methods inherited from class jebl.evolution.align.scores.NucleotideScores

getAlphabet, getName, toString

Methods inherited from class jebl.evolution.align.scores.Scores

duplicate, forMatrix, getMatrixString, getScore, includeAdditionalCharacters, includeGaps

Methods inherited from class java.lang.Object

equals, getClass, hashCode, notify, notifyAll, wait, wait, wait

Constructor Detail

JukesCantor

public JukesCantor(float d)

Parameters:

d - evolutionary distance used to calculate values