package
readsets
Type Members
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type
NumSamples = Int
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type
PerSample[+A] = IndexedSeq[A]
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case class
ReadSets(readsRDDs: PerSample[ReadsRDD], sequenceDictionary: SequenceDictionary, contigLengths: ContigLengths) extends PerSample[ReadsRDD] with Product with Serializable
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type
SampleId = Int
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type
SampleName = String
Value Members
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object
ReadSets extends Logging with Serializable
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package
io
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package
rdd
Inherited from AnyRef
Inherited from Any
This package contains functionality related to processing multiple "sets of reads" (e.g. BAM files) in the context of a single analysis.
For example, a standard somatic caller will typically load and analyze separate "normal" and "tumor" samples, each corresponding to an RDD[MappedRead], but which will also share metadata, like the ContigLengths of the reference they are mapped to.