Package picard.arrays

Class BafRegressMetrics

java.lang.Object
htsjdk.samtools.metrics.MetricBase
picard.arrays.BafRegressMetrics
@DocumentedFeature(groupName="Metrics", summary="Metrics") public class BafRegressMetrics extends htsjdk.samtools.metrics.MetricBase

  • Field Summary

    Fields
    Modifier and Type
    Field
    Description
    double
    CALL_RATE
    The call rate of the sample (number of non-missing genotypes)
    double
    ESTIMATE
    The estimate of contamination from the model (on the 0.0-1.0 scale)
    double
    LOG10_PVAL
    The log p-value of the estimate
    int
    NHOM
    The number of homozygous genotypes used to fit the model
    double
    PVAL
    The p-value of the estimate
    String
    SAMPLE
    The sample name
    double
    STDERR
    The standard error of the estimate
    double
    TVAL
    The test statistic for the estimate

  • Constructor Summary

    Constructors
    Constructor
    Description
    BafRegressMetrics()
     

  • 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

  • Field Details

    • SAMPLE

      public String SAMPLE
      The sample name

    • ESTIMATE

      public double ESTIMATE
      The estimate of contamination from the model (on the 0.0-1.0 scale)

    • STDERR

      public double STDERR
      The standard error of the estimate

    • TVAL

      public double TVAL
      The test statistic for the estimate

    • PVAL

      public double PVAL
      The p-value of the estimate

    • LOG10_PVAL

      public double LOG10_PVAL
      The log p-value of the estimate

    • CALL_RATE

      public double CALL_RATE
      The call rate of the sample (number of non-missing genotypes)

    • NHOM

      public int NHOM
      The number of homozygous genotypes used to fit the model

  • Constructor Details

    • BafRegressMetrics

      public BafRegressMetrics()