org.bdgenomics.adam.avro

ADAMPileup

class ADAMPileup extends SpecificRecordBase with SpecificRecord

Linear Supertypes
SpecificRecordBase, Comparable[SpecificRecord], SpecificRecord, IndexedRecord, GenericContainer, AnyRef, Any
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Inherited
  1. ADAMPileup
  2. SpecificRecordBase
  3. Comparable
  4. SpecificRecord
  5. IndexedRecord
  6. GenericContainer
  7. AnyRef
  8. Any
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Visibility
  1. Public
  2. All

Instance Constructors

  1. new ADAMPileup(referenceName: CharSequence, referenceId: Integer, position: Long, rangeOffset: Integer, rangeLength: Integer, referenceBase: Base, readBase: Base, sangerQuality: Integer, mapQuality: Integer, numSoftClipped: Integer, numReverseStrand: Integer, countAtPosition: Integer, readName: CharSequence, readStart: Long, readEnd: Long, recordGroupSequencingCenter: CharSequence, recordGroupDescription: CharSequence, recordGroupRunDateEpoch: Long, recordGroupFlowOrder: CharSequence, recordGroupKeySequence: CharSequence, recordGroupLibrary: CharSequence, recordGroupPredictedMedianInsertSize: Integer, recordGroupPlatform: CharSequence, recordGroupPlatformUnit: CharSequence, recordGroupSample: CharSequence)

  2. new ADAMPileup()

Value Members

  1. final def !=(arg0: AnyRef): Boolean

    Definition Classes
    AnyRef

  2. final def !=(arg0: Any): Boolean

    Definition Classes
    Any

  3. final def ##(): Int

    Definition Classes
    AnyRef → Any

  4. final def ==(arg0: AnyRef): Boolean

    Definition Classes
    AnyRef

  5. final def ==(arg0: Any): Boolean

    Definition Classes
    Any

  6. final def asInstanceOf[T0]: T0

    Definition Classes
    Any

  7. def clone(): AnyRef

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

  8. def compareTo(arg0: SpecificRecord): Int

    Definition Classes
    SpecificRecordBase → Comparable

  9. final def eq(arg0: AnyRef): Boolean

    Definition Classes
    AnyRef

  10. def equals(arg0: Any): Boolean

    Definition Classes
    SpecificRecordBase → AnyRef → Any

  11. def finalize(): Unit

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

  12. def get(arg0: Int): AnyRef

    Definition Classes
    ADAMPileup → SpecificRecordBase → IndexedRecord

  13. final def getClass(): Class[_]

    Definition Classes
    AnyRef → Any

  14. def getCountAtPosition(): Integer

  15. def getMapQuality(): Integer

  16. def getNumReverseStrand(): Integer

  17. def getNumSoftClipped(): Integer

  18. def getPosition(): Long

  19. def getRangeLength(): Integer

  20. def getRangeOffset(): Integer

  21. def getReadBase(): Base

  22. def getReadEnd(): Long

  23. def getReadName(): CharSequence

  24. def getReadStart(): Long

  25. def getRecordGroupDescription(): CharSequence

  26. def getRecordGroupFlowOrder(): CharSequence

  27. def getRecordGroupKeySequence(): CharSequence

  28. def getRecordGroupLibrary(): CharSequence

  29. def getRecordGroupPlatform(): CharSequence

  30. def getRecordGroupPlatformUnit(): CharSequence

  31. def getRecordGroupPredictedMedianInsertSize(): Integer

  32. def getRecordGroupRunDateEpoch(): Long

  33. def getRecordGroupSample(): CharSequence

  34. def getRecordGroupSequencingCenter(): CharSequence

  35. def getReferenceBase(): Base

  36. def getReferenceId(): Integer

  37. def getReferenceName(): CharSequence

  38. def getSangerQuality(): Integer

  39. def getSchema(): Schema

    Definition Classes
    ADAMPileup → SpecificRecordBase → GenericContainer

  40. def hashCode(): Int

    Definition Classes
    SpecificRecordBase → AnyRef → Any

  41. final def isInstanceOf[T0]: Boolean

    Definition Classes
    Any

  42. final def ne(arg0: AnyRef): Boolean

    Definition Classes
    AnyRef

  43. final def notify(): Unit

    Definition Classes
    AnyRef

  44. final def notifyAll(): Unit

    Definition Classes
    AnyRef

  45. def put(arg0: Int, arg1: Any): Unit

    Definition Classes
    ADAMPileup → SpecificRecordBase → IndexedRecord

  46. def setCountAtPosition(value: Integer): Unit

  47. def setMapQuality(value: Integer): Unit

  48. def setNumReverseStrand(value: Integer): Unit

  49. def setNumSoftClipped(value: Integer): Unit

  50. def setPosition(value: Long): Unit

  51. def setRangeLength(value: Integer): Unit

  52. def setRangeOffset(value: Integer): Unit

  53. def setReadBase(value: Base): Unit

  54. def setReadEnd(value: Long): Unit

  55. def setReadName(value: CharSequence): Unit

  56. def setReadStart(value: Long): Unit

  57. def setRecordGroupDescription(value: CharSequence): Unit

  58. def setRecordGroupFlowOrder(value: CharSequence): Unit

  59. def setRecordGroupKeySequence(value: CharSequence): Unit

  60. def setRecordGroupLibrary(value: CharSequence): Unit

  61. def setRecordGroupPlatform(value: CharSequence): Unit

  62. def setRecordGroupPlatformUnit(value: CharSequence): Unit

  63. def setRecordGroupPredictedMedianInsertSize(value: Integer): Unit

  64. def setRecordGroupRunDateEpoch(value: Long): Unit

  65. def setRecordGroupSample(value: CharSequence): Unit

  66. def setRecordGroupSequencingCenter(value: CharSequence): Unit

  67. def setReferenceBase(value: Base): Unit

  68. def setReferenceId(value: Integer): Unit

  69. def setReferenceName(value: CharSequence): Unit

  70. def setSangerQuality(value: Integer): Unit

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

    Definition Classes
    AnyRef

  72. def toString(): String

    Definition Classes
    SpecificRecordBase → AnyRef → Any

  73. final def wait(): Unit

    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

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

    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

  75. final def wait(arg0: Long): Unit

    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

Inherited from SpecificRecordBase

Inherited from Comparable[SpecificRecord]

Inherited from SpecificRecord

Inherited from IndexedRecord

Inherited from GenericContainer

Inherited from AnyRef

Inherited from Any

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