case class BaseEntry(rec: SamRecord, offset: Int) extends PileupEntry with Product with Serializable
Pileup entry representing a match or mismatch.
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final
def
!=(arg0: Any): Boolean
- Definition Classes
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final
def
##(): Int
- Definition Classes
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- def +(other: String): String
- def ->[B](y: B): (BaseEntry, B)
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final
def
==(arg0: Any): Boolean
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final
def
asInstanceOf[T0]: T0
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- val base: Byte
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def
baseInReadOrientation: Byte
Returns the base as it was read on the sequencer.
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def
clone(): AnyRef
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- @throws( ... )
- def ensuring(cond: (BaseEntry) ⇒ Boolean, msg: ⇒ Any): BaseEntry
- def ensuring(cond: (BaseEntry) ⇒ Boolean): BaseEntry
- def ensuring(cond: Boolean, msg: ⇒ Any): BaseEntry
- def ensuring(cond: Boolean): BaseEntry
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final
def
eq(arg0: AnyRef): Boolean
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def
finalize(): Unit
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- def formatted(fmtstr: String): String
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final
def
getClass(): Class[_]
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final
def
isInstanceOf[T0]: Boolean
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final
def
ne(arg0: AnyRef): Boolean
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final
def
notify(): Unit
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final
def
notifyAll(): Unit
- Definition Classes
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val
offset: Int
- Definition Classes
- BaseEntry → PileupEntry
-
def
positionInRead: Int
Returns the 1-based position within the read in the read's current orientation.
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def
positionInReadInReadOrder: Int
Returns the 1-based position within the read in the order the read was sequenced.
Returns the 1-based position within the read in the order the read was sequenced. This can be thought of as the offset from the 5' end plus one.
- val qual: Byte
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val
rec: SamRecord
- Definition Classes
- BaseEntry → PileupEntry
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final
def
synchronized[T0](arg0: ⇒ T0): T0
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final
def
wait(): Unit
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final
def
wait(arg0: Long, arg1: Int): Unit
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final
def
wait(arg0: Long): Unit
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