Package org.snpeff.binseq.comparator
Class DnaQualSubsequenceComparator
java.lang.Object
org.snpeff.binseq.comparator.SubsequenceComparator<DnaAndQualitySequence>
org.snpeff.binseq.comparator.DnaQualSubsequenceComparator
Compares two subsequences of DNA (DnaAndQualitySequence)
- Author:
- pcingola
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Constructor Summary
ConstructorsConstructorDescriptionDnaQualSubsequenceComparator
(boolean differentLengthsAreEqual) DnaQualSubsequenceComparator
(boolean differentLengthsAreEqual, int maxDifferentBases) -
Method Summary
Modifier and TypeMethodDescriptionint
compare
(DnaAndQualitySequence seq1, int index1, DnaAndQualitySequence seq2, int index2) int
score
(DnaAndQualitySequence seq1, int index1, DnaAndQualitySequence seq2, int index2)
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Constructor Details
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DnaQualSubsequenceComparator
public DnaQualSubsequenceComparator(boolean differentLengthsAreEqual) -
DnaQualSubsequenceComparator
public DnaQualSubsequenceComparator(boolean differentLengthsAreEqual, int maxDifferentBases)
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Method Details
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compare
- Specified by:
compare
in classSubsequenceComparator<DnaAndQualitySequence>
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score
- Specified by:
score
in classSubsequenceComparator<DnaAndQualitySequence>
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