bamstats

Type Members

1. case class Args(outputDir: File = null, bamFile: File = null, referenceFasta: Option[File] = None, binSize: Int = 10000, threadBinSize: Int = 1000000, tsvOutputs: Boolean = false) extends Product with Serializable

   

2. class ArgsParser extends AbstractOptParser[Args]

   

3. class FlagstatCollector extends AnyRef

   

   Created by pjvan_thof on 21-7-16.

4. case class Stats(flagstat: FlagstatCollector = new FlagstatCollector(), mappingQualityHistogram: Histogram[Int] = new Histogram[Int](), insertSizeHistogram: Histogram[Int] = new Histogram[Int](), clippingHistogram: Histogram[Int] = new Histogram[Int](), leftClippingHistogram: Histogram[Int] = new Histogram[Int](), rightClippingHistogram: Histogram[Int] = new Histogram[Int](), _5_ClippingHistogram: Histogram[Int] = new Histogram[Int](), _3_ClippingHistogram: Histogram[Int] = new Histogram[Int]()) extends Product with Serializable

   

   Created by pjvanthof on 05/07/16.