Package htsjdk.samtools.cram.encoding.readfeatures

Class Bases

java.lang.Object

htsjdk.samtools.cram.encoding.readfeatures.Bases

All Implemented Interfaces:

ReadFeature, Serializable

public final class Bases
extends Object
implements Serializable, ReadFeature

See Also:

• Serialized Form

Field Summary

Fields

Modifier and Type	Field	Description
static final byte	operator

Constructor Summary

Constructors

Constructor	Description
Bases(int position, byte[] sequence)

Method Summary

Modifier and Type	Method	Description
boolean	equals(Object o)
byte[]	getBases()
byte	getOperator()	Read features are distinguished by operator, similar to cigar operator.
int	getPosition()
int	hashCode()
void	setBases(byte[] bases)
String	toString()

Methods inherited from class java.lang.Object

clone, finalize, getClass, notify, notifyAll, wait, wait, wait

Field Details

operator

public static final byte operator

See Also:

• Constant Field Values

Constructor Details

Bases

public Bases(int position,
 byte[] sequence)

Method Details

getBases

public byte[] getBases()

setBases

public void setBases(byte[] bases)

getOperator

public byte getOperator()

Description copied from interface: ReadFeature

Read features are distinguished by operator, similar to cigar operator.

Specified by:

getOperator in interface ReadFeature

Returns:

type of the read feature

getPosition

public int getPosition()

Specified by:

getPosition in interface ReadFeature

Returns:

zero-based position in the read

toString

public String toString()

Overrides:

toString in class Object

equals

public boolean equals(Object o)

Overrides:

equals in class Object

hashCode

public int hashCode()

Overrides:

hashCode in class Object