ADAM_2.12: Core 0.33.0 API < Back
 

# Packages

-  package root
  Definition Classes
    root
-  package org
  Definition Classes
    root
-  package bdgenomics
  Definition Classes
    org
-  package adam
  Definition Classes
    bdgenomics
-  package rdd
  Definition Classes
    adam
-  package feature
  Definition Classes
    rdd
- BEDInFormatter
- BEDOutFormatter
- CoverageDataset
- DatasetBoundCoverageDataset
- DatasetBoundFeatureDataset
- FeatureDataset
- GFF3InFormatter
- GFF3OutFormatter
- GTFInFormatter
- GTFOutFormatter
- NarrowPeakInFormatter
- NarrowPeakOutFormatter
- ParquetUnboundCoverageDataset
- ParquetUnboundFeatureDataset
- RDDBoundCoverageDataset
- RDDBoundFeatureDataset
-  package fragment
  Definition Classes
    rdd
-  package read
  Definition Classes
    rdd
-  package sequence
  Definition Classes
    rdd
-  package variant
  Definition Classes
    rdd

p

org.bdgenomics.adam.rdd

# feature 

#### package feature

 
Ordering

1. Alphabetic

Visibility

1. Public
2. All

### Type Members

1.  case class BEDInFormatter extends InFormatter[Feature, Feature, FeatureDataset, BEDInFormatter] with Product with Serializable
2.  case class BEDOutFormatter(stringency: ValidationStringency = ValidationStringency.STRICT) extends OutFormatter[Feature] with Product with Serializable

   OutFormatter that reads streaming BED format.

   OutFormatter that reads streaming BED format.

   stringency

     Validation stringency. Defaults to ValidationStringency.STRICT.

3.  abstract class CoverageDataset extends MultisampleGenomicDataset[Coverage, Coverage, CoverageDataset] with GenomicDataset[Coverage, Coverage, CoverageDataset]
4.  case class DatasetBoundCoverageDataset extends CoverageDataset with DatasetBoundGenomicDataset[Coverage, Coverage, CoverageDataset] with Product with Serializable
5.  case class DatasetBoundFeatureDataset extends FeatureDataset with DatasetBoundGenomicDataset[Feature, Feature, FeatureDataset] with Product with Serializable
6.  sealed abstract class FeatureDataset extends AvroGenomicDataset[Feature, Feature, FeatureDataset] with MultisampleGenomicDataset[Feature, Feature, FeatureDataset]
7.  case class GFF3InFormatter extends InFormatter[Feature, Feature, FeatureDataset, GFF3InFormatter] with Product with Serializable
8.  case class GFF3OutFormatter(stringency: ValidationStringency = ValidationStringency.STRICT) extends OutFormatter[Feature] with Product with Serializable

   OutFormatter that reads streaming GFF3 format.

   OutFormatter that reads streaming GFF3 format.

   stringency

     Validation stringency. Defaults to ValidationStringency.STRICT.

9.  case class GTFInFormatter extends InFormatter[Feature, Feature, FeatureDataset, GTFInFormatter] with Product with Serializable
10.  case class GTFOutFormatter(stringency: ValidationStringency = ValidationStringency.STRICT) extends OutFormatter[Feature] with Product with Serializable

    OutFormatter that reads streaming GTF format.

    OutFormatter that reads streaming GTF format.

    stringency

      Validation stringency. Defaults to ValidationStringency.STRICT.

11.  case class NarrowPeakInFormatter extends InFormatter[Feature, Feature, FeatureDataset, NarrowPeakInFormatter] with Product with Serializable
12.  case class NarrowPeakOutFormatter() extends OutFormatter[Feature] with Product with Serializable

    OutFormatter that reads streaming NarrowPeak format.

13.  case class ParquetUnboundCoverageDataset extends CoverageDataset with Product with Serializable
14.  case class ParquetUnboundFeatureDataset extends FeatureDataset with Product with Serializable
15.  case class RDDBoundCoverageDataset extends CoverageDataset with Product with Serializable
16.  case class RDDBoundFeatureDataset extends FeatureDataset with Product with Serializable

### Value Members

1.  object BEDInFormatter extends InFormatterCompanion[Feature, Feature, FeatureDataset, BEDInFormatter] with Serializable

   InFormatter companion that builds a BEDInFormatter to write features in BED format to a pipe.

2.  object CoverageDataset
3.  object FeatureDataset
4.  object GFF3InFormatter extends InFormatterCompanion[Feature, Feature, FeatureDataset, GFF3InFormatter] with Serializable

   InFormatter companion that builds a GFF3InFormatter to write features in GFF3 format to a pipe.

5.  object GTFInFormatter extends InFormatterCompanion[Feature, Feature, FeatureDataset, GTFInFormatter] with Serializable

   InFormatter companion that builds a GTFInFormatter to write features in GTF format to a pipe.

6.  object NarrowPeakInFormatter extends InFormatterCompanion[Feature, Feature, FeatureDataset, NarrowPeakInFormatter] with Serializable

   InFormatter companion that builds a NarrowPeakInFormatter to write features in NarrowPeak format to a pipe.

### Ungrouped