htsjdk.samtools.cram.encoding.readfeatures

Interface ReadFeature

All Known Implementing Classes:

BaseQualityScore, Bases, Deletion, HardClip, InsertBase, Insertion, Padding, ReadBase, RefSkip, Scores, SoftClip, Substitution

public interface ReadFeature

An interface to capture data in read coordinates.

Method Summary

Modifier and Type	Method and Description
byte	getOperator() Read features are distinguished by operator, similar to cigar operator.
int	getPosition()
void	setPosition(int position)

Method Detail

getPosition

int getPosition()

Returns:

zero-based position in the read

setPosition

void setPosition(int position)

getOperator

byte getOperator()

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

Returns:

type of the read feature