Package org.snpeff.binseq.comparator
Class DnaQualSubsequenceComparator
- java.lang.Object
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- org.snpeff.binseq.comparator.SubsequenceComparator<DnaAndQualitySequence>
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- org.snpeff.binseq.comparator.DnaQualSubsequenceComparator
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public class DnaQualSubsequenceComparator extends SubsequenceComparator<DnaAndQualitySequence>
Compares two subsequences of DNA (DnaAndQualitySequence)- Author:
- pcingola
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Constructor Summary
Constructors Constructor Description DnaQualSubsequenceComparator(boolean differentLengthsAreEqual)
DnaQualSubsequenceComparator(boolean differentLengthsAreEqual, int maxDifferentBases)
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Method Summary
All Methods Instance Methods Concrete Methods Modifier and Type Method Description int
compare(DnaAndQualitySequence seq1, int index1, DnaAndQualitySequence seq2, int index2)
int
score(DnaAndQualitySequence seq1, int index1, DnaAndQualitySequence seq2, int index2)
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Method Detail
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compare
public int compare(DnaAndQualitySequence seq1, int index1, DnaAndQualitySequence seq2, int index2)
- Specified by:
compare
in classSubsequenceComparator<DnaAndQualitySequence>
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score
public int score(DnaAndQualitySequence seq1, int index1, DnaAndQualitySequence seq2, int index2)
- Specified by:
score
in classSubsequenceComparator<DnaAndQualitySequence>
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