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.

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Known Subclasses
FullOuterShuffleRegionJoin, InnerShuffleRegionJoin, InnerShuffleRegionJoinAndGroupByLeft, InnerTreeRegionJoin, InnerTreeRegionJoinAndGroupByRight, LeftOuterShuffleRegionJoin, RightOuterShuffleRegionJoin, RightOuterShuffleRegionJoinAndGroupByLeft, RightOuterTreeRegionJoin, RightOuterTreeRegionJoinAndGroupByRight, ShuffleRegionJoin
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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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