DNASequenceCreator

java.lang.Object
- org.biojava.nbio.core.sequence.io.DNASequenceCreator

All Implemented Interfaces:

SequenceCreatorInterface<NucleotideCompound>
```
public class DNASequenceCreator
extends java.lang.Object
implements SequenceCreatorInterface<NucleotideCompound>
```
A helper class that allows different ways to read a string and create a DNA sequence. Used in FastaReaderHelper and probably a layer that isn't needed

Author:

Scooter Willis

Constructor Summary

Constructors
Constructor Description

DNASequenceCreator(CompoundSet<NucleotideCompound> compoundSet)

Constructors
Constructor	Description
`DNASequenceCreator(CompoundSet<NucleotideCompound> compoundSet)`

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`AbstractSequence<NucleotideCompound>`	`getSequence(java.lang.String sequence, long index)`
`AbstractSequence<NucleotideCompound>`	`getSequence(java.util.List<NucleotideCompound> list)`
`AbstractSequence<NucleotideCompound>`	`getSequence(ProxySequenceReader<NucleotideCompound> proxyLoader, long index)`

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

Constructor Detail

DNASequenceCreator

public DNASequenceCreator(CompoundSet<NucleotideCompound> compoundSet)

Parameters:: compoundSet -

Method Detail

getSequence

public AbstractSequence<NucleotideCompound> getSequence(java.lang.String sequence,
                                                        long index)
                                                 throws CompoundNotFoundException

Specified by:: getSequence in interface SequenceCreatorInterface<NucleotideCompound>
Parameters:: sequence - The Sequence from a String; index - Currently not used
Returns:
Throws:: CompoundNotFoundException

getSequence
```
public AbstractSequence<NucleotideCompound> getSequence(ProxySequenceReader<NucleotideCompound> proxyLoader,
                                                        long index)
```
Specified by:

getSequence in interface SequenceCreatorInterface<NucleotideCompound>

Parameters:

proxyLoader - The Sequence from a ProxySequenceReader

index - Currently not used

Returns:

getSequence
```
public AbstractSequence<NucleotideCompound> getSequence(java.util.List<NucleotideCompound> list)
```
Specified by:

getSequence in interface SequenceCreatorInterface<NucleotideCompound>

Parameters:

list -

Returns:

Class DNASequenceCreator

Constructor Summary

Method Summary

Methods inherited from class java.lang.Object

Constructor Detail

DNASequenceCreator

Method Detail

getSequence

getSequence

getSequence