htsjdk.samtools.cram.encoding.readfeatures

Class Deletion

java.lang.Object

htsjdk.samtools.cram.encoding.readfeatures.Deletion

All Implemented Interfaces:

ReadFeature, java.io.Serializable

public final class Deletion
extends java.lang.Object
implements java.io.Serializable, ReadFeature

A read feature representing a deletion of one or more bases similar to CigarOperator.D.

See Also:

Serialized Form

Field Summary

Fields

Modifier and Type	Field and Description
static byte	operator

Constructor Summary

Constructors

Constructor and Description
Deletion(int position, int length)

Method Summary

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

Methods inherited from class java.lang.Object

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

Field Detail

operator

public static final byte operator

See Also:

Constant Field Values

Constructor Detail

Deletion

public Deletion(int position,
                int length)

Method Detail

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 java.lang.String toString()

Overrides:

toString in class java.lang.Object

equals

public boolean equals(java.lang.Object o)

Overrides:

equals in class java.lang.Object

hashCode

public int hashCode()

Overrides:

hashCode in class java.lang.Object