LengthNormalization

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final def !=(arg0: AnyRef): Boolean

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final def !=(arg0: Any): Boolean

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final def ##(): Int

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final def ==(arg0: AnyRef): Boolean

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final def ==(arg0: Any): Boolean

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def apply[I <: Interval, T](rdd: RDD[((Double, I), T)]): RDD[((Double, I), T)]

Normalizes an RDD that contains a double value and an interval by the width of the interval.
Normalizes an RDD that contains a double value and an interval by the width of the interval.
T
Datatype of additional value parameter to maintain.
rdd
An RDD containing (a value to be normalized, an interval, and an additional data value), for normalization.
returns
Returns an RDD containing (the double normalized by the interval length, the original interval, the original data value) after normalization.

See also
pkn
final def asInstanceOf[T0]: T0

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def clone(): AnyRef

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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

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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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def isTraceEnabled(): Boolean

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def log: Logger

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def logDebug(msg: ⇒ String, throwable: Throwable): Unit

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def logDebug(msg: ⇒ String): Unit

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def logError(msg: ⇒ String, throwable: Throwable): Unit

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def logError(msg: ⇒ String): Unit

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def logInfo(msg: ⇒ String, throwable: Throwable): Unit

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def logInfo(msg: ⇒ String): Unit

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def logName: String

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def logTrace(msg: ⇒ String, throwable: Throwable): Unit

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def logTrace(msg: ⇒ String): Unit

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def logWarning(msg: ⇒ String, throwable: Throwable): Unit

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def logWarning(msg: ⇒ String): Unit

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protected
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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

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def pkn[I <: Interval, T](rdd: RDD[((Double, I), T)], k: Double = 1000.0, n: Double = 1000000.0): RDD[((Double, I), T)]

Normalizes an RDD that contains a double value and an interval by the width of the interval and the total aggregate value of all values.
Normalizes an RDD that contains a double value and an interval by the width of the interval and the total aggregate value of all values. This is useful for calculating entities like reads/fragments per kilobase of transcript per million reads (RPKM/FPKM).
T
Datatype of additional value parameter to maintain.
rdd
An RDD containing (a value to be normalized, an interval, and an additional data value), for normalization.
n
Global normalization factor. E.g., for RPKM, n = 1,000,000 (reads per kilobase transcript per _million_ reads).
returns
Returns an RDD containing (the double normalized by the interval length, the original interval, the original data value) after normalization.

See also
apply
final def synchronized[T0](arg0: ⇒ T0): T0

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def toString(): String

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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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object LengthNormalization extends Serializable with Logging

Value Members

final def !=(arg0: AnyRef): Boolean

final def !=(arg0: Any): Boolean

final def ##(): Int

final def ==(arg0: AnyRef): Boolean

final def ==(arg0: Any): Boolean

def apply[I <: Interval, T](rdd: RDD[((Double, I), T)]): RDD[((Double, I), T)]

final def asInstanceOf[T0]: T0

def clone(): AnyRef

final def eq(arg0: AnyRef): Boolean

def equals(arg0: Any): Boolean

def finalize(): Unit

final def getClass(): Class[_]

def hashCode(): Int

final def isInstanceOf[T0]: Boolean

def isTraceEnabled(): Boolean

def log: Logger

def logDebug(msg: ⇒ String, throwable: Throwable): Unit

def logDebug(msg: ⇒ String): Unit

def logError(msg: ⇒ String, throwable: Throwable): Unit

def logError(msg: ⇒ String): Unit

def logInfo(msg: ⇒ String, throwable: Throwable): Unit

def logInfo(msg: ⇒ String): Unit

def logName: String

def logTrace(msg: ⇒ String, throwable: Throwable): Unit

def logTrace(msg: ⇒ String): Unit

def logWarning(msg: ⇒ String, throwable: Throwable): Unit

def logWarning(msg: ⇒ String): Unit

final def ne(arg0: AnyRef): Boolean

final def notify(): Unit

final def notifyAll(): Unit

def pkn[I <: Interval, T](rdd: RDD[((Double, I), T)], k: Double = 1000.0, n: Double = 1000000.0): RDD[((Double, I), T)]

final def synchronized[T0](arg0: ⇒ T0): T0

def toString(): String

final def wait(): Unit

final def wait(arg0: Long, arg1: Int): Unit

final def wait(arg0: Long): Unit

Inherited from Logging

Inherited from Serializable

Inherited from Serializable

Inherited from AnyRef

Inherited from Any

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