- lambda - Variable in class uni.bielefeld.cmg.sparkhit.util.DefaultParam
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- line - Variable in class uni.bielefeld.cmg.sparkhit.struct.ReadInfo
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- lineToFasta - Variable in class uni.bielefeld.cmg.sparkhit.util.DefaultParam
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- listTitle - Variable in class uni.bielefeld.cmg.sparkhit.pipeline.BatchAlignPipe
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- loadBufferedFastq() - Method in class uni.bielefeld.cmg.sparkhit.io.FastqUnitBuffer
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This method loads 1000 fastq units into buffer for streaming
fastq reads.
- loadBufferedFastq(int) - Method in class uni.bielefeld.cmg.sparkhit.io.ReadFastq
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This method loads number fastq units into buffer
for streaming fastq reads.
- loadRef(String) - Method in class uni.bielefeld.cmg.sparkhit.reference.RefStructBuilder
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This method load the genome sequences from the input reference file.
- loadReference() - Method in class uni.bielefeld.cmg.sparkhit.pipeline.Pipelines
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This is a test method to test the run time of serializing the reference genomes.
- loadReference() - Method in class uni.bielefeld.cmg.sparkhit.pipeline.SparkPipe
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This method builds the reference index.
- loc - Variable in class uni.bielefeld.cmg.sparkhit.struct.HitInfo
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- loc - Variable in class uni.bielefeld.cmg.sparkhit.struct.KmerLoc
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- logInfo() - Method in class uni.bielefeld.cmg.sparkhit.struct.ReadInfo
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This method logs all required information from a fastq unit.