ADAM_2.12: Core 1.0.1 API < Back
 

# Packages

-  package root
  Definition Classes
    root
-  package org
  Definition Classes
    root
-  package bdgenomics
  Definition Classes
    org
-  package adam
  Definition Classes
    bdgenomics
-  package sql
  Definition Classes
    adam
- Alignment
- Dbxref
- Feature
- Fragment
- Genotype
- OntologyTerm
- ProcessingStep
- Read
- Reference
- Sequence
- Slice
- TranscriptEffect
- Variant
- VariantAnnotation
- VariantCallingAnnotations
- VariantContext

c

org.bdgenomics.adam.sql

# Feature 

###
Companion object Feature

#### case class Feature(featureId: Option[String] = None, sampleId: Option[String] = None, name: Option[String] = None, source: Option[String] = None, featureType: Option[String] = None, referenceName: Option[String] = None, start: Option[Long] = None, end: Option[Long] = None, strand: Option[String] = None, phase: Option[Int] = None, frame: Option[Int] = None, score: Option[Double] = None, geneId: Option[String] = None, transcriptId: Option[String] = None, exonId: Option[String] = None, proteinId: Option[String] = None, aliases: Seq[String] = Seq(), parentIds: Seq[String] = Seq(), target: Option[String] = None, gap: Option[String] = None, derivesFrom: Option[String] = None, notes: Seq[String] = Seq(), dbxrefs: Seq[Dbxref] = Seq(), ontologyTerms: Seq[OntologyTerm] = Seq(), circular: Option[Boolean] = None, attributes: Map[String, String] = Map()) extends Product with Serializable

Linear Supertypes
Serializable, Serializable, Product, Equals, AnyRef, Any
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Ordering

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2. By Inheritance

Inherited

1. Feature
2. Serializable
3. Serializable
4. Product
5. Equals
6. AnyRef
7. Any

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Visibility

1. Public
2. All

### Instance Constructors

1.  new Feature(featureId: Option[String] = None, sampleId: Option[String] = None, name: Option[String] = None, source: Option[String] = None, featureType: Option[String] = None, referenceName: Option[String] = None, start: Option[Long] = None, end: Option[Long] = None, strand: Option[String] = None, phase: Option[Int] = None, frame: Option[Int] = None, score: Option[Double] = None, geneId: Option[String] = None, transcriptId: Option[String] = None, exonId: Option[String] = None, proteinId: Option[String] = None, aliases: Seq[String] = Seq(), parentIds: Seq[String] = Seq(), target: Option[String] = None, gap: Option[String] = None, derivesFrom: Option[String] = None, notes: Seq[String] = Seq(), dbxrefs: Seq[Dbxref] = Seq(), ontologyTerms: Seq[OntologyTerm] = Seq(), circular: Option[Boolean] = None, attributes: Map[String, String] = Map())

### 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 aliases: Seq[String]
5.  final def asInstanceOf[T0]: T0
   Definition Classes
     Any
6.  val attributes: Map[String, String]
7.  def canEqual(that: Any): Boolean
   Definition Classes
     Feature → Equals
8.  val circular: Option[Boolean]
9.  def clone(): AnyRef
   Attributes
     protected[lang]
   Definition Classes
     AnyRef
   Annotations
     @throws( ... ) @native() @HotSpotIntrinsicCandidate()
10.  val dbxrefs: Seq[Dbxref]
11.  val derivesFrom: Option[String]
12.  val end: Option[Long]
13.  final def eq(arg0: AnyRef): Boolean
    Definition Classes
      AnyRef
14.  val exonId: Option[String]
15.  val featureId: Option[String]
16.  val featureType: Option[String]
17.  val frame: Option[Int]
18.  val gap: Option[String]
19.  val geneId: Option[String]
20.  final def getClass(): Class[_]
    Definition Classes
      AnyRef → Any
    Annotations
      @native() @HotSpotIntrinsicCandidate()
21.  final def isInstanceOf[T0]: Boolean
    Definition Classes
      Any
22.  val name: Option[String]
23.  final def ne(arg0: AnyRef): Boolean
    Definition Classes
      AnyRef
24.  val notes: Seq[String]
25.  final def notify(): Unit
    Definition Classes
      AnyRef
    Annotations
      @native() @HotSpotIntrinsicCandidate()
26.  final def notifyAll(): Unit
    Definition Classes
      AnyRef
    Annotations
      @native() @HotSpotIntrinsicCandidate()
27.  val ontologyTerms: Seq[OntologyTerm]
28.  val parentIds: Seq[String]
29.  val phase: Option[Int]
30.  def productArity: Int
    Definition Classes
      Feature → Product
31.  def productElement(i: Int): Any
    Definition Classes
      Feature → Product
32.  val proteinId: Option[String]
33.  val referenceName: Option[String]
34.  val sampleId: Option[String]
35.  val score: Option[Double]
36.  val source: Option[String]
37.  val start: Option[Long]
38.  val strand: Option[String]
39.  final def synchronized[T0](arg0: ⇒ T0): T0
    Definition Classes
      AnyRef
40.  val target: Option[String]
41.  def toAvro: formats.avro.Feature
42.  val transcriptId: Option[String]
43.  final def wait(arg0: Long, arg1: Int): Unit
    Definition Classes
      AnyRef
    Annotations
      @throws( ... )
44.  final def wait(arg0: Long): Unit
    Definition Classes
      AnyRef
    Annotations
      @throws( ... ) @native()
45.  final def wait(): Unit
    Definition Classes
      AnyRef
    Annotations
      @throws( ... )

### Deprecated Value Members

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

### Inherited from Serializable

### Inherited from Product

### Inherited from Equals

### Inherited from AnyRef

### Inherited from Any

### Ungrouped