sealed trait BlockInfo extends AnyRef
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Abstract Value Members
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abstract
def
fragments: Int
The number of fragments contributing to variants in this block.
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abstract
def
len: Int
The total number of variants that this block spans, including unphased variants.
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abstract
def
offset: Int
The 1-based variant offset from the first variant given to HapCut.
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abstract
def
phaseSetOption: Option[Int]
Stores the phase set, or None if it has not been set.
Stores the phase set, or None if it has not been set.
- Attributes
- protected
-
abstract
def
phased: Int
The total number of variants phased.
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abstract
def
span: Int
The number of bases this block spans.
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abstract
def
withPhaseSet(phaseSet: Option[Int]): BlockInfo
Updates the phase set to which this block belongs.
Concrete Value Members
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final
def
!=(arg0: Any): Boolean
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final
def
##(): Int
- Definition Classes
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- def +(other: String): String
- def ->[B](y: B): (BlockInfo, B)
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final
def
==(arg0: Any): Boolean
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final
def
asInstanceOf[T0]: T0
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def
clone(): AnyRef
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- protected[java.lang]
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- Annotations
- @throws( ... )
- def ensuring(cond: (BlockInfo) ⇒ Boolean, msg: ⇒ Any): BlockInfo
- def ensuring(cond: (BlockInfo) ⇒ Boolean): BlockInfo
- def ensuring(cond: Boolean, msg: ⇒ Any): BlockInfo
- def ensuring(cond: Boolean): BlockInfo
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final
def
eq(arg0: AnyRef): Boolean
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def
equals(arg0: Any): Boolean
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-
def
finalize(): Unit
- Attributes
- protected[java.lang]
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- @throws( classOf[java.lang.Throwable] )
- def formatted(fmtstr: String): String
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final
def
getClass(): Class[_]
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-
def
hashCode(): Int
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final
def
isInstanceOf[T0]: Boolean
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final
def
ne(arg0: AnyRef): Boolean
- Definition Classes
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final
def
notify(): Unit
- Definition Classes
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final
def
notifyAll(): Unit
- Definition Classes
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-
def
offsetOfLastVariant: Int
The 1-based variant offset (from the first variant given to HapCut) of the last genotype in this block.
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def
phaseSet: Int
The phase set identifier for this block (typically the position of the first variant).
The phase set identifier for this block (typically the position of the first variant). Throws an exception if the
phaseSetOptionwas None when this was constructed. -
final
def
synchronized[T0](arg0: ⇒ T0): T0
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def
toString(): String
- Definition Classes
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final
def
wait(): Unit
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- @throws( ... )
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final
def
wait(arg0: Long, arg1: Int): Unit
- Definition Classes
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- Annotations
- @throws( ... )
-
final
def
wait(arg0: Long): Unit
- Definition Classes
- AnyRef
- Annotations
- @throws( ... )
- def →[B](y: B): (BlockInfo, B)