case class ReferenceMap(referenceMap: Map[String, Seq[Slice]]) extends ReferenceFile with Product with Serializable
A broadcastable ReferenceFile backed by a map containing reference name -> Seq[Slice] pairs.
- referenceMap
a map containing a Seq of slices per contig.
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Instance Constructors
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new
ReferenceMap(referenceMap: Map[String, Seq[Slice]])
- referenceMap
a map containing a Seq of slices per contig.
Value Members
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final
def
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final
def
eq(arg0: AnyRef): Boolean
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def
extract(region: ReferenceRegion): String
Extract reference sequence from the file.
Extract reference sequence from the file.
- region
The desired ReferenceRegion to extract.
- returns
The reference sequence at the desired locus.
- Definition Classes
- ReferenceMap → ReferenceFile
-
def
finalize(): Unit
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def
notifyAll(): Unit
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- val referenceMap: Map[String, Seq[Slice]]
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val
references: SequenceDictionary
The reference sequence dictionary corresponding to the contigs in this collection of fragments.
The reference sequence dictionary corresponding to the contigs in this collection of fragments.
- Definition Classes
- ReferenceMap → ReferenceFile
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final
def
synchronized[T0](arg0: ⇒ T0): T0
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def
toString(): String
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