c

org.bdgenomics.adam.rdd

RegionJoin

abstract class RegionJoin[T, U, RT, RU] extends Serializable

A trait describing a join in the genomic coordinate space between two RDDs where the values are keyed by a ReferenceRegion.

T

The type of the left RDD.

U

The type of the right RDD.

RT

The type of data yielded by the left RDD at the output of the join. This may not match T if the join is an outer join, etc.

RU

The type of data yielded by the right RDD at the output of the join.

Linear Supertypes
Serializable, Serializable, AnyRef, Any
Known Subclasses
FullOuterShuffleRegionJoin, InnerShuffleRegionJoin, InnerShuffleRegionJoinAndGroupByLeft, InnerTreeRegionJoin, InnerTreeRegionJoinAndGroupByRight, LeftOuterShuffleRegionJoin, LeftOuterShuffleRegionJoinAndGroupByLeft, RightOuterShuffleRegionJoinAndGroupByLeft, RightOuterTreeRegionJoin, RightOuterTreeRegionJoinAndGroupByRight, ShuffleRegionJoin, SortedIntervalPartitionJoinWithVictims, TreeRegionJoin, VictimlessSortedIntervalPartitionJoin
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Instance Constructors

  1. new RegionJoin()(implicit arg0: ClassTag[T], arg1: ClassTag[U])

Abstract Value Members

  1. abstract def partitionAndJoin(baseRDD: RDD[(ReferenceRegion, T)], joinedRDD: RDD[(ReferenceRegion, U)]): RDD[(RT, RU)]

    Performs a region join between two RDDs.

    Performs a region join between two RDDs.

    baseRDD

    The 'left' side of the join

    joinedRDD

    The 'right' side of the join

    returns

    An RDD of pairs (x, y), where x is from baseRDD, y is from joinedRDD, and the region corresponding to x overlaps the region corresponding to y.

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