Package htsjdk.samtools.cram.encoding.readfeatures

Class RefSkip

java.lang.Object

htsjdk.samtools.cram.encoding.readfeatures.RefSkip

All Implemented Interfaces:

ReadFeature, Serializable

public class RefSkip
extends Object
implements Serializable, ReadFeature

A read feature representing a reference skip similar to CigarOperator.N.

See Also:

• Serialized Form

Field Summary

Fields

Modifier and Type	Field	Description
static final byte	operator

Constructor Summary

Constructors

Constructor	Description
RefSkip(int position, int length)

Method Summary

Modifier and Type	Method	Description
boolean	equals(Object o)
int	getLength()
byte	getOperator()	Read features are distinguished by operator, similar to cigar operator.
int	getPosition()
int	hashCode()
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

RefSkip

public RefSkip(int position,
 int length)

Method Details

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

getLength

public int getLength()

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