net.maizegenetics.pangenome.api

Class HaplotypeSequence

java.lang.Object

net.maizegenetics.pangenome.api.HaplotypeSequence

public class HaplotypeSequence
extends Object

Author:

Terry Casstevens Created June 19, 2017, Zack Miller, Karl Kremling, Jacob Washburn

Method Summary

Modifier and Type	Method and Description
static HaplotypeSequence	getInstance(String sequence, ReferenceRange referenceRange, double qualityScore, String seqHash) Factory method to create HaplotypeSequence This allows a copy of the HaplotypeSequence to be returned instead of the original mutable object
double	qualityScore() Basis of this score and units to be determined
ReferenceRange	referenceRange() Reference Range in (alternative)reference genome
String	seqHash() Sequence hash in md5
String	sequence() String representation of this nucleotide sequence
String	toString()

Methods inherited from class java.lang.Object

equals, getClass, hashCode, notify, notifyAll, wait, wait, wait

Method Detail

getInstance

public static HaplotypeSequence getInstance(String sequence,
                                            ReferenceRange referenceRange,
                                            double qualityScore,
                                            String seqHash)

Factory method to create HaplotypeSequence This allows a copy of the HaplotypeSequence to be returned instead of the original mutable object

Parameters:

sequence -

referenceRange -

qualityScore -

Returns:

referenceRange

public ReferenceRange referenceRange()

Reference Range in (alternative)reference genome

qualityScore

public double qualityScore()

Basis of this score and units to be determined

seqHash

public String seqHash()

Sequence hash in md5

toString

public String toString()

Overrides:

toString in class Object

sequence

public String sequence()

String representation of this nucleotide sequence

Returns:

sequence