jbil.sequence
Class SequenceFactory

java.lang.Object
  jbil.sequence.SequenceFactory

public class SequenceFactory
extends java.lang.Object

Singleton sequence factory.

Author:

Paulo G. S. da Fonseca

Method Summary

Sequence	createDNASequence(java.lang.String strsequence) Parses a string into a DNA sequence, that is, a Sequence object.
static SequenceFactory	getInstance()
Sequence	newSequence(Alphabet alphabet) Creates a new empty sequence over the specified base alphabet.

Methods inherited from class java.lang.Object

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

Method Detail

getInstance

public static SequenceFactory getInstance()

Returns:

The singleton instance of the sequence factory.

newSequence

public Sequence newSequence(Alphabet alphabet)

Creates a new empty sequence over the specified base alphabet.

Parameters:

alphabet -

createDNASequence

public Sequence createDNASequence(java.lang.String strsequence)

Parses a string into a DNA sequence, that is, a Sequence object. The String cannot have characters other than a,g,c,t. Otherwise an InvalidSymbolException is raised. with a DNAAlphabet as base alphabet.

Parameters:

strsequence - The DNA string.