case class BAMInFormatter extends AnySAMInFormatter[BAMInFormatter] with Product with Serializable

Linear Supertypes
Product, Equals, AnySAMInFormatter[BAMInFormatter], InFormatter[Alignment, Alignment, AlignmentDataset, BAMInFormatter], Serializable, Serializable, AnyRef, Any
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Inherited
  1. BAMInFormatter
  2. Product
  3. Equals
  4. AnySAMInFormatter
  5. InFormatter
  6. Serializable
  7. Serializable
  8. AnyRef
  9. Any
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Visibility
  1. Public
  2. All

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. final def asInstanceOf[T0]: T0
    Definition Classes
    Any
  5. def clone(): AnyRef
    Attributes
    protected[lang]
    Definition Classes
    AnyRef
    Annotations
    @throws( ... ) @native() @HotSpotIntrinsicCandidate()
  6. val companion: BAMInFormatter.type
    Attributes
    protected
    Definition Classes
    BAMInFormatterInFormatter
  7. val converter: AlignmentConverter

    A converter from Alignment to SAMRecord.

    A converter from Alignment to SAMRecord.

    Definition Classes
    BAMInFormatterAnySAMInFormatter
  8. final def eq(arg0: AnyRef): Boolean
    Definition Classes
    AnyRef
  9. final def getClass(): Class[_]
    Definition Classes
    AnyRef → Any
    Annotations
    @native() @HotSpotIntrinsicCandidate()
  10. val header: SAMFileHeader

    A serializable form of the SAM File Header.

    A serializable form of the SAM File Header.

    Definition Classes
    BAMInFormatterAnySAMInFormatter
  11. final def isInstanceOf[T0]: Boolean
    Definition Classes
    Any
  12. def makeWriter(os: OutputStream): SAMFileWriter
    Attributes
    protected
    Definition Classes
    BAMInFormatterAnySAMInFormatter
  13. final def ne(arg0: AnyRef): Boolean
    Definition Classes
    AnyRef
  14. final def notify(): Unit
    Definition Classes
    AnyRef
    Annotations
    @native() @HotSpotIntrinsicCandidate()
  15. final def notifyAll(): Unit
    Definition Classes
    AnyRef
    Annotations
    @native() @HotSpotIntrinsicCandidate()
  16. val readGroups: ReadGroupDictionary

    A dictionary describing the read groups these reads are from.

    A dictionary describing the read groups these reads are from.

    Definition Classes
    BAMInFormatterAnySAMInFormatter
  17. final def synchronized[T0](arg0: ⇒ T0): T0
    Definition Classes
    AnyRef
  18. final def wait(arg0: Long, arg1: Int): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  19. final def wait(arg0: Long): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... ) @native()
  20. final def wait(): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  21. def write(os: OutputStream, iter: Iterator[Alignment]): Unit

    Writes alignments to an output stream in SAM format.

    Writes alignments to an output stream in SAM format.

    os

    An OutputStream connected to a process we are piping to.

    iter

    An iterator of records to write.

    Definition Classes
    AnySAMInFormatterInFormatter

Deprecated Value Members

  1. def finalize(): Unit
    Attributes
    protected[lang]
    Definition Classes
    AnyRef
    Annotations
    @throws( classOf[java.lang.Throwable] ) @Deprecated
    Deprecated

Inherited from Product

Inherited from Equals

Inherited from InFormatter[Alignment, Alignment, AlignmentDataset, BAMInFormatter]

Inherited from Serializable

Inherited from Serializable

Inherited from AnyRef

Inherited from Any

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