Package com.compomics.util.experiment.identification.protein_sequences

Class AmbiguousSequenceIterator

java.lang.Object

com.compomics.util.experiment.identification.protein_sequences.AmbiguousSequenceIterator

public class AmbiguousSequenceIterator
extends Object

Iterator going through the possible sequences of a sequence containing combinations of amino acids.

Author:

Marc Vaudel

Constructor Summary

Constructors

Constructor	Description
AmbiguousSequenceIterator()	Empty default constructor
AmbiguousSequenceIterator(char[] sequence, int expectedNumberOfCombinations)	Constructor.
AmbiguousSequenceIterator(String sequence)	Constructor.
AmbiguousSequenceIterator(String sequence, int expectedNumberOfCombinations)	Constructor.

Method Summary

Modifier and Type	Method	Description
char[]	getNextSequence()	Returns the next sequence, null if none.

Methods inherited from class java.lang.Object

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

Constructor Details

AmbiguousSequenceIterator

public AmbiguousSequenceIterator()

Empty default constructor

AmbiguousSequenceIterator

public AmbiguousSequenceIterator(char[] sequence,
 int expectedNumberOfCombinations)

Constructor.

Parameters:

sequence - the sequence to iterate as char array

expectedNumberOfCombinations - the expected number of combinations

AmbiguousSequenceIterator

public AmbiguousSequenceIterator(String sequence,
 int expectedNumberOfCombinations)

Constructor.

Parameters:

sequence - the sequence as String

expectedNumberOfCombinations - the expected number of combinations

AmbiguousSequenceIterator

public AmbiguousSequenceIterator(String sequence)

Constructor.

Parameters:

sequence - the sequence as String

Method Details

getNextSequence

public char[] getNextSequence()

Returns the next sequence, null if none.

Returns:

the next sequence