Value Members

1.  final def !=(arg0: Any): Boolean

   Definition Classes

   AnyRef → Any

2.  final def ##(): Int

   Definition Classes

   AnyRef → Any

3.  final def ==(arg0: Any): Boolean

   Definition Classes

   AnyRef → Any

4.  val MaximumInsertSize: Int

   The maximum insert size that can be stored in a SamRecord.

5.  val MissingBases: String

   The value for the base string when no bases are present.

6.  val MissingQuals: String

   The value for the base quality string when no base qualities are present.

7.  val UnknownMappingQuality: Int

   The mapping quality when not available.

8.  val UnmappedCigarString: String

   The cigar string for an unmapped read.

9.  val UnmappedReferenceIndex: Int

   The reference index for an unmapped read.

10.  val UnmappedReferenceName: String

    The reference name for an unmapped read.

11.  val UnmappedStart: Int

    The reference position for an unmapped read.

12.  val ZeroMappingQuality: Int

    The mapping quality for an unmapped or multi-mapped read

13.  def apply(header: SAMFileHeader): SamRecord

    Factory method for new SamRecord instances.

14.  final def asInstanceOf[T0]: T0

    Definition Classes

    Any

15.  def clone(): AnyRef

    Attributes

    protected[java.lang]

    Definition Classes

    AnyRef

    Annotations

    @throws( ... )

16.  final def eq(arg0: AnyRef): Boolean

    Definition Classes

    AnyRef

17.  def equals(arg0: Any): Boolean

    Definition Classes

    AnyRef → Any

18.  def finalize(): Unit

    Attributes

    protected[java.lang]

    Definition Classes

    AnyRef

    Annotations

    @throws( classOf[java.lang.Throwable] )

19.  final def getClass(): Class[_]

    Definition Classes

    AnyRef → Any

20.  def hashCode(): Int

    Definition Classes

    AnyRef → Any

21.  final def isInstanceOf[T0]: Boolean

    Definition Classes

    Any

22.  final def ne(arg0: AnyRef): Boolean

    Definition Classes

    AnyRef

23.  final def notify(): Unit

    Definition Classes

    AnyRef

24.  final def notifyAll(): Unit

    Definition Classes

    AnyRef

25.  final def synchronized[T0](arg0: ⇒ T0): T0

    Definition Classes

    AnyRef

26.  def toString(): String

    Definition Classes

    AnyRef → Any

27.  final def wait(): Unit

    Definition Classes

    AnyRef

    Annotations

    @throws( ... )

28.  final def wait(arg0: Long, arg1: Int): Unit

    Definition Classes

    AnyRef

    Annotations

    @throws( ... )

29.  final def wait(arg0: Long): Unit

    Definition Classes

    AnyRef

    Annotations

    @throws( ... )

30.  object Factory extends SAMRecordFactory

    Singleton implementation of SAMRecordFactory to return instances of htsjdk.samtools.SAMRecord and htsjdk.samtools.BAMRecord that have been enhanced by mixing in SamRecord.