object Coordinate extends SamOrder with Product with Serializable
Ordering object for coordinate order per the SAM spec - reads without refIndex/coordinate are sorted to the end.
Linear Supertypes
Ordering
- Alphabetic
- By Inheritance
Inherited
- Coordinate
- Serializable
- Serializable
- SamOrder
- Product
- Equals
- AnyRef
- Any
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Visibility
- Public
- All
Type Members
-
type
A = CoordinateKey
- Definition Classes
- Coordinate → SamOrder
Value Members
-
final
def
!=(arg0: Any): Boolean
- Definition Classes
- AnyRef → Any
-
final
def
##(): Int
- Definition Classes
- AnyRef → Any
-
final
def
==(arg0: Any): Boolean
- Definition Classes
- AnyRef → Any
-
def
applyTo(header: SAMFileHeader): SAMFileHeader
Sets the appropriate fields in the SAM header for the order.
Sets the appropriate fields in the SAM header for the order.
- Definition Classes
- SamOrder
-
final
def
asInstanceOf[T0]: T0
- Definition Classes
- Any
-
def
clone(): AnyRef
- Attributes
- protected[java.lang]
- Definition Classes
- AnyRef
- Annotations
- @throws( ... )
-
final
def
eq(arg0: AnyRef): Boolean
- Definition Classes
- AnyRef
-
def
equals(arg0: Any): Boolean
- Definition Classes
- AnyRef → Any
-
def
finalize(): Unit
- Attributes
- protected[java.lang]
- Definition Classes
- AnyRef
- Annotations
- @throws( classOf[java.lang.Throwable] )
-
final
def
getClass(): Class[_]
- Definition Classes
- AnyRef → Any
-
val
groupOrder: GroupOrder
- Definition Classes
- Coordinate → SamOrder
-
final
def
isInstanceOf[T0]: Boolean
- Definition Classes
- Any
-
def
name: String
Returns the order's name.
Returns the order's name.
- Definition Classes
- SamOrder
-
final
def
ne(arg0: AnyRef): Boolean
- Definition Classes
- AnyRef
-
final
def
notify(): Unit
- Definition Classes
- AnyRef
-
final
def
notifyAll(): Unit
- Definition Classes
- AnyRef
-
val
sortOrder: SortOrder
- Definition Classes
- Coordinate → SamOrder
-
val
sortkey: (SamRecord) ⇒ A
- Definition Classes
- Coordinate → SamOrder
-
val
subSort: Option[String]
- Definition Classes
- Coordinate → SamOrder
-
final
def
synchronized[T0](arg0: ⇒ T0): T0
- Definition Classes
- AnyRef
-
final
def
wait(): Unit
- Definition Classes
- AnyRef
- Annotations
- @throws( ... )
-
final
def
wait(arg0: Long, arg1: Int): Unit
- Definition Classes
- AnyRef
- Annotations
- @throws( ... )
-
final
def
wait(arg0: Long): Unit
- Definition Classes
- AnyRef
- Annotations
- @throws( ... )