Package org.snpeff.fastq
Class FastqTrimmer
java.lang.Object
org.snpeff.fastq.FastqTrimmer
- Direct Known Subclasses:
FastqTrimmerMedian
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 -
Constructor Summary
Constructors -
Method Summary
Modifier and TypeMethodDescriptionorg.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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Field Details
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debug
public static boolean debug
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Constructor Details
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FastqTrimmer
public FastqTrimmer(int qualityThreshold, int minBases)
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Method Details
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trim
public 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- Parameters:
fastq
-- Returns:
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