CollectQualityYieldMetrics.QualityYieldMetrics (PICARD JDK API Documentation)

java.lang.Object
- htsjdk.samtools.metrics.MetricBase
- - picard.analysis.CollectQualityYieldMetrics.QualityYieldMetrics

public static class CollectQualityYieldMetrics.QualityYieldMetrics
extends htsjdk.samtools.metrics.MetricBase

A set of metrics used to describe the general quality of a BAM file

Fields
Modifier and Type	Field and Description
`long`	`PF_BASES` The total number of bases in all PF reads
`long`	`PF_Q20_BASES` The number of bases in PF reads that achieve quality score 20 or higher
`long`	`PF_Q20_EQUIVALENT_YIELD` The sum of quality scores of all bases divided by 20
`long`	`PF_Q30_BASES` The number of bases in PF reads that achieve quality score 30 or higher
`int`	`PF_READS` The number of reads that are PF - pass filter
`long`	`Q20_BASES` The number of bases in all reads that achieve quality score 20 or higher
`long`	`Q20_EQUIVALENT_YIELD` The sum of quality scores of all bases divided by 20
`long`	`Q30_BASES` The number of bases in all reads that achieve quality score 30 or higher
`int`	`READ_LENGTH` The average read length of all the reads (will be fixed for a lane)
`long`	`TOTAL_BASES` The total number of bases in all reads
`int`	`TOTAL_READS` The total number of reads in the input file

Constructors
Constructor and Description
`QualityYieldMetrics()`

Method Summary
- Methods inherited from class htsjdk.samtools.metrics.MetricBase
  equals, hashCode, toString
- Methods inherited from class java.lang.Object
  clone, finalize, getClass, notify, notifyAll, wait, wait, wait

Class CollectQualityYieldMetrics.QualityYieldMetrics