org.bdgenomics.adam.rdd.read

# SAMInFormatter

###
Related Docs: class SAMInFormatter | package read

#### object SAMInFormatter extends AnySAMInFormatterCompanion[SAMInFormatter] with Serializable

InFormatter companion for building an InFormatter that streams SAM.

Linear Supertypes
Serializable, Serializable, AnySAMInFormatterCompanion[SAMInFormatter], InFormatterCompanion[AlignmentRecord, AlignmentRecord, AlignmentRecordDataset, SAMInFormatter], AnyRef, Any
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Inherited

1. SAMInFormatter
2. Serializable
3. Serializable
4. AnySAMInFormatterCompanion
5. InFormatterCompanion
6. AnyRef
7. Any

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Visibility

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### 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. #### def apply(gDataset: AlignmentRecordDataset): SAMInFormatter

   Makes an AnySAMInFormatter from a GenomicDataset of AlignmentRecords.

   Makes an AnySAMInFormatter from a GenomicDataset of AlignmentRecords.

   gDataset

     AlignmentRecordDataset with reference build and read group info.

   returns

     Returns an InFormatter that extends AnySAMInFormatter.

   Definition Classes
     AnySAMInFormatterCompanion → InFormatterCompanion

5. #### final def asInstanceOf[T0]: T0

   Definition Classes
     Any

6. #### def clone(): AnyRef

   Attributes
     protected[java.lang]
   Definition Classes
     AnyRef
   Annotations
     @throws( ... )

7. #### final def eq(arg0: AnyRef): Boolean

   Definition Classes
     AnyRef

8. #### def equals(arg0: Any): Boolean

   Definition Classes
     AnyRef → Any

9. #### def finalize(): Unit

   Attributes
     protected[java.lang]
   Definition Classes
     AnyRef
   Annotations
     @throws( classOf[java.lang.Throwable] )

10. #### final def getClass(): Class[_]

    Definition Classes
      AnyRef → Any

11. #### def hashCode(): Int

    Definition Classes
      AnyRef → Any

12. #### final def isInstanceOf[T0]: Boolean

    Definition Classes
      Any

13. #### def makeFormatter(header: SAMFileHeader, readGroups: ReadGroupDictionary, converter: AlignmentRecordConverter): SAMInFormatter

    Attributes
      protected
    Definition Classes
      SAMInFormatter → AnySAMInFormatterCompanion

14. #### final def ne(arg0: AnyRef): Boolean

    Definition Classes
      AnyRef

15. #### final def notify(): Unit

    Definition Classes
      AnyRef

16. #### final def notifyAll(): Unit

    Definition Classes
      AnyRef

17. #### final def synchronized[T0](arg0: ⇒ T0): T0

    Definition Classes
      AnyRef

18. #### def toString(): String

    Definition Classes
      AnyRef → Any

19. #### final def wait(): Unit

    Definition Classes
      AnyRef
    Annotations
      @throws( ... )

20. #### final def wait(arg0: Long, arg1: Int): Unit

    Definition Classes
      AnyRef
    Annotations
      @throws( ... )

21. #### final def wait(arg0: Long): Unit

    Definition Classes
      AnyRef
    Annotations
      @throws( ... )

### Inherited from Serializable

### Inherited from AnySAMInFormatterCompanion[SAMInFormatter]

### Inherited from InFormatterCompanion[AlignmentRecord, AlignmentRecord, AlignmentRecordDataset, SAMInFormatter]

### Inherited from AnyRef

### Inherited from Any

### Ungrouped