ADAM_2.12: Core 0.30.0 API < Back
 

# Packages

-  package root
  Definition Classes
    root
-  package org
  Definition Classes
    root
-  package bdgenomics
  Definition Classes
    org
-  package adam
  Definition Classes
    bdgenomics
-  package projections
  Definition Classes
    adam
- AlignmentField
- DbxrefField
- FeatureField
- FieldEnumeration
- FieldValue
- Filter
- FragmentField
- GenotypeField
- OntologyTermField
- Projection
- ReadField
- ReadGroupField
- ReferenceField
- SampleField
- SequenceField
- SliceField
- TranscriptEffectField
- VariantAnnotationField
- VariantCallingAnnotationsField
- VariantField

o

org.bdgenomics.adam.projections

# AlignmentField 

###

#### object AlignmentField extends FieldEnumeration

Linear Supertypes
FieldEnumeration, Enumeration, Serializable, Serializable, AnyRef, Any
 
Ordering

1. Alphabetic
2. By Inheritance

Inherited

1. AlignmentField
2. FieldEnumeration
3. Enumeration
4. Serializable
5. Serializable
6. AnyRef
7. Any

1. Hide All
2. Show All

Visibility

1. Public
2. All

### Type Members

1.  class Val extends Value with Serializable
   Attributes
     protected
   Definition Classes
     Enumeration
   Annotations
     @SerialVersionUID()
2.  abstract class Value extends Ordered[Value] with Serializable
   Definition Classes
     Enumeration
   Annotations
     @SerialVersionUID()
3.  class ValueSet extends AbstractSet[Value] with SortedSet[Value] with SortedSetLike[Value, ValueSet] with Serializable
   Definition Classes
     Enumeration
4.  class SchemaVal extends Val with FieldValue

   An enumerated field that is part of this schema.

   An enumerated field that is part of this schema.

   Definition Classes
     FieldEnumeration

### 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 SchemaValue: SchemaVal
   Attributes
     protected
   Definition Classes
     FieldEnumeration
5.  final def Value(i: Int, name: String): Value
   Attributes
     protected
   Definition Classes
     Enumeration
6.  final def Value(name: String): Value
   Attributes
     protected
   Definition Classes
     Enumeration
7.  final def Value(i: Int): Value
   Attributes
     protected
   Definition Classes
     Enumeration
8.  final def Value: Value
   Attributes
     protected
   Definition Classes
     Enumeration
9.  final def apply(x: Int): Value
   Definition Classes
     Enumeration
10.  final def asInstanceOf[T0]: T0
    Definition Classes
      Any
11.  val attributes: SchemaVal
12.  val basesTrimmedFromEnd: SchemaVal
13.  val basesTrimmedFromStart: SchemaVal
14.  val cigar: SchemaVal
15.  def clone(): AnyRef
    Attributes
      protected[java.lang]
    Definition Classes
      AnyRef
    Annotations
      @native() @throws( ... )
16.  val duplicateRead: SchemaVal
17.  val end: SchemaVal
18.  final def eq(arg0: AnyRef): Boolean
    Definition Classes
      AnyRef
19.  def equals(arg0: Any): Boolean
    Definition Classes
      AnyRef → Any
20.  val failedVendorQualityChecks: SchemaVal
21.  def finalize(): Unit
    Attributes
      protected[java.lang]
    Definition Classes
      AnyRef
    Annotations
      @throws( classOf[java.lang.Throwable] )
22.  final def getClass(): Class[_]
    Definition Classes
      AnyRef → Any
    Annotations
      @native()
23.  def hashCode(): Int
    Definition Classes
      AnyRef → Any
    Annotations
      @native()
24.  val insertSize: SchemaVal
25.  final def isInstanceOf[T0]: Boolean
    Definition Classes
      Any
26.  val mappingQuality: SchemaVal
27.  val mateAlignmentStart: SchemaVal
28.  val mateMapped: SchemaVal
29.  val mateNegativeStrand: SchemaVal
30.  val mateReferenceName: SchemaVal
31.  final def maxId: Int
    Definition Classes
      Enumeration
32.  val mismatchingPositions: SchemaVal
33.  final def ne(arg0: AnyRef): Boolean
    Definition Classes
      AnyRef
34.  var nextId: Int
    Attributes
      protected
    Definition Classes
      Enumeration
35.  var nextName: Iterator[String]
    Attributes
      protected
    Definition Classes
      Enumeration
36.  final def notify(): Unit
    Definition Classes
      AnyRef
    Annotations
      @native()
37.  final def notifyAll(): Unit
    Definition Classes
      AnyRef
    Annotations
      @native()
38.  val originalCigar: SchemaVal
39.  val originalQualityScores: SchemaVal
40.  val originalStart: SchemaVal
41.  val primaryAlignment: SchemaVal
42.  val properPair: SchemaVal
43.  val qualityScores: SchemaVal
44.  val readGroupId: SchemaVal
45.  val readGroupSampleId: SchemaVal
46.  val readInFragment: SchemaVal
47.  val readMapped: SchemaVal
48.  val readName: SchemaVal
49.  val readNegativeStrand: SchemaVal
50.  val readPaired: SchemaVal
51.  def readResolve(): AnyRef
    Attributes
      protected
    Definition Classes
      Enumeration
52.  val recordSchema: Schema
    Definition Classes
      FieldEnumeration
53.  val referenceName: SchemaVal
54.  val secondaryAlignment: SchemaVal
55.  val sequence: SchemaVal
56.  val start: SchemaVal
57.  val supplementaryAlignment: SchemaVal
58.  final def synchronized[T0](arg0: ⇒ T0): T0
    Definition Classes
      AnyRef
59.  def toString(): String
    Definition Classes
      Enumeration → AnyRef → Any
60.  def values: ValueSet
    Definition Classes
      Enumeration
61.  final def wait(): Unit
    Definition Classes
      AnyRef
    Annotations
      @throws( ... )
62.  final def wait(arg0: Long, arg1: Int): Unit
    Definition Classes
      AnyRef
    Annotations
      @throws( ... )
63.  final def wait(arg0: Long): Unit
    Definition Classes
      AnyRef
    Annotations
      @native() @throws( ... )
64.  final def withName(s: String): Value
    Definition Classes
      Enumeration

### Inherited from FieldEnumeration

### Inherited from Enumeration

### Inherited from Serializable

### Inherited from AnyRef

### Inherited from Any

### Ungrouped