case class GenomicRegionPartitioner(partitionSize: Long, seqLengths: Map[String, Long], start: Boolean = true) extends Partitioner with Logging with Product with Serializable
A partitioner for ReferenceRegion-keyed data.
- partitionSize
The number of bases per partition.
- seqLengths
A map between contig names and contig lengths.
- start
If true, use the start position (instead of the end position) to decide which partition a key belongs to.
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new
GenomicRegionPartitioner(partitionSize: Long, seqLengths: Map[String, Long], start: Boolean = true)
- partitionSize
The number of bases per partition.
- seqLengths
A map between contig names and contig lengths.
- start
If true, use the start position (instead of the end position) to decide which partition a key belongs to.
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def
getPartition(key: Any): Int
- key
The key to get the partition index for.
- returns
The partition that a key should map to.
- Definition Classes
- GenomicRegionPartitioner → Partitioner
- Exceptions thrown
IllegalArgumentException
Throws an exception if the data is not a ReferenceRegion or a tuple of (ReferenceRegion, _).
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def
numPartitions: Int
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The number of partitions described by this partitioner. Roughly the size of the genome divided by the partition length.
- Definition Classes
- GenomicRegionPartitioner → Partitioner
- val partitionSize: Long
- val seqLengths: Map[String, Long]
- val start: Boolean
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