org.bdgenomics.adam.rdd

RegionJoin

trait RegionJoin[T, U, RT, RU] extends AnyRef

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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Abstract Value Members

  1. abstract def partitionAndJoin(baseRDD: RDD[(ReferenceRegion, T)], joinedRDD: RDD[(ReferenceRegion, U)])(implicit tManifest: ClassTag[T], uManifest: ClassTag[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

    tManifest

    implicit type of baseRDD

    uManifest

    implicit type of joinedRDD

    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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