public class PairedReadMergingResult extends Object implements Serializable
| Modifier and Type | Field and Description |
|---|---|
static int |
MATCH_SCORE |
static int |
MISMATCH_SCORE |
| Constructor and Description |
|---|
PairedReadMergingResult(PairedRead originalRead)
Constructor for failed merging result.
|
PairedReadMergingResult(PairedRead originalRead,
NSequenceWithQuality overlappedSequence,
int overlap,
int errors,
boolean reversed,
int offset,
MergerParameters.IdentityType identityType,
double identity)
Constructor for successful merging result.
|
| Modifier and Type | Method and Description |
|---|---|
boolean |
equals(Object o) |
int |
getErrors() |
double |
getIdentity() |
MergerParameters.IdentityType |
getIdentityType() |
int |
getOffset() |
PairedRead |
getOriginalRead() |
int |
getOverlap() |
NSequenceWithQuality |
getOverlappedSequence() |
int |
hashCode() |
boolean |
isReversed() |
boolean |
isSuccessful() |
int |
score() |
String |
toString() |
public static final int MATCH_SCORE
public static final int MISMATCH_SCORE
public PairedReadMergingResult(PairedRead originalRead)
originalRead - original readpublic PairedReadMergingResult(PairedRead originalRead, NSequenceWithQuality overlappedSequence, int overlap, int errors, boolean reversed, int offset, MergerParameters.IdentityType identityType, double identity)
originalRead - original readoverlappedSequence - reconstructed (overlapped) sequence from paired-end readsoverlap - number of overlapped nucleotideserrors - number of mismatches/insertions/deletions found in overlapping regionpublic boolean isSuccessful()
public PairedRead getOriginalRead()
public NSequenceWithQuality getOverlappedSequence()
public int getOverlap()
public int getOffset()
public int getErrors()
public double getIdentity()
public MergerParameters.IdentityType getIdentityType()
public int score()
public boolean isReversed()
Copyright © 2018. All rights reserved.