Package org.snpeff.fastq
Class FastqTrimmer
- java.lang.Object
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- org.snpeff.fastq.FastqTrimmer
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- Direct Known Subclasses:
FastqTrimmerMedian
public class FastqTrimmer extends java.lang.Object
Trim fastq sequence when quality drops below a threshold The resulting sequence has to ba at least 'minBases'- Author:
- pcingola
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Field Summary
Fields Modifier and Type Field Description static boolean
debug
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Constructor Summary
Constructors Constructor Description FastqTrimmer(int qualityThreshold, int minBases)
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Method Summary
All Methods Instance Methods Concrete Methods Modifier and Type Method Description org.biojava.nbio.genome.io.fastq.Fastq
trim(org.biojava.nbio.genome.io.fastq.Fastq fastq)
Create a new fastq sequence by trimming the given sequence
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