final case class LocationSegment(bucket: BucketId, sequence: SeqID, location: SeqLocation, nucleotides: NTBitArray) extends Product with Serializable
A superkmer (segment where every k-mer shares the same minimizer), with bucket ID, sequence ID, and 1-based sequence location.
- bucket
bucket (derived from minimizer)
- sequence
Sequence ID/header that this segment came from
- location
Sequence location (1-based) if available. Location is relative to the position in the original sequence with the given header.
- nucleotides
Encoded nucleotides of this segment
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new
LocationSegment(bucket: BucketId, sequence: SeqID, location: SeqLocation, nucleotides: NTBitArray)
- bucket
bucket (derived from minimizer)
- sequence
Sequence ID/header that this segment came from
- location
Sequence location (1-based) if available. Location is relative to the position in the original sequence with the given header.
- nucleotides
Encoded nucleotides of this segment
Value Members
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final
def
!=(arg0: Any): Boolean
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final
def
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def
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- val bucket: BucketId
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def
clone(): AnyRef
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getClass(): Class[_]
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def
humanReadable(splitter: AnyMinSplitter): (String, SeqID, SeqLocation, NTSeq)
Obtain a human-readable (decoded) version of this SplitSegment
Obtain a human-readable (decoded) version of this SplitSegment
- splitter
The splitter object that generated this segment
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final
def
isInstanceOf[T0]: Boolean
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- val location: SeqLocation
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final
def
ne(arg0: AnyRef): Boolean
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notify(): Unit
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def
notifyAll(): Unit
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- val nucleotides: NTBitArray
- val sequence: SeqID
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def
synchronized[T0](arg0: ⇒ T0): T0
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def
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