Class CollectWgsMetricsWithNonZeroCoverage.WgsMetricsWithNonZeroCoverage

  • Enclosing class:
    CollectWgsMetricsWithNonZeroCoverage

    @DocumentedFeature(groupName="Metrics",
                       summary="Metrics")
    public static class CollectWgsMetricsWithNonZeroCoverage.WgsMetricsWithNonZeroCoverage
    extends WgsMetrics
    Metrics for evaluating the performance of whole genome sequencing experiments.
    • Constructor Detail

      • WgsMetricsWithNonZeroCoverage

        public WgsMetricsWithNonZeroCoverage()
      • WgsMetricsWithNonZeroCoverage

        public WgsMetricsWithNonZeroCoverage​(htsjdk.samtools.util.IntervalList intervals,
                                             htsjdk.samtools.util.Histogram<Integer> highQualityDepthHistogram,
                                             htsjdk.samtools.util.Histogram<Integer> unfilteredDepthHistogram,
                                             double pctExcludedByAdapter,
                                             double pctExcludedByMapq,
                                             double pctExcludedByDupes,
                                             double pctExcludedByPairing,
                                             double pctExcludedByBaseq,
                                             double pctExcludedByOverlap,
                                             double pctExcludedByCapping,
                                             double pctTotal,
                                             int coverageCap,
                                             htsjdk.samtools.util.Histogram<Integer> unfilteredBaseQHistogram,
                                             int sampleSize)