TotalCnKernelSmoothing: The TotalCnKernelSmoothing class
In HenrikBengtsson/aroma.cn: Copy-Number Analysis of Large Microarray Data Sets

TotalCnKernelSmoothing

R Documentation

The TotalCnKernelSmoothing class

Description

Package: aroma.cn
Class TotalCnKernelSmoothing

Object
~~|
~~+--ParametersInterface
~~~~~~~|
~~~~~~~+--AromaTransform
~~~~~~~~~~~~|
~~~~~~~~~~~~+--TotalCnSmoothing
~~~~~~~~~~~~~~~~~|
~~~~~~~~~~~~~~~~~+--TotalCnKernelSmoothing

Directly known subclasses:

public static class TotalCnKernelSmoothing
extends TotalCnSmoothing

Usage

TotalCnKernelSmoothing(..., kernel=c("gaussian", "uniform"), bandwidth=50000, censorH=3,
  robust=FALSE)

Arguments

`...`	Arguments passed to `TotalCnSmoothing`.
`kernel`	A `character` string specifying the type of kernel to be used.
`bandwidth`	A `double` specifying the bandwidth of the smoothing.
`censorH`	A positive `double` specifying the bandwidth threshold where values outside are ignored (zero weight).
`robust`	If `TRUE`, a robust smoother is used, otherwise not.

Fields and Methods

Methods:
No methods defined.

Methods inherited from TotalCnSmoothing:
getAsteriskTags, getOutputDataSet0, getOutputFileClass, getOutputFileExtension, getOutputFileSetClass, getOutputFiles, getParameters, getPath, getRootPath, getTargetPositions, getTargetUgpFile, process, smoothRawCopyNumbers

Methods inherited from AromaTransform:
as.character, findFilesTodo, getAsteriskTags, getExpectedOutputFiles, getExpectedOutputFullnames, getFullName, getInputDataSet, getName, getOutputDataSet, getOutputDataSet0, getOutputFiles, getPath, getRootPath, getTags, isDone, process, setTags

Methods inherited from ParametersInterface:
getParameterSets, getParameters, getParametersAsString

Methods inherited from Object:
$, $<-, [[, [[<-, as.character, attach, attachLocally, clearCache, clearLookupCache, clone, detach, equals, extend, finalize, getEnvironment, getFieldModifier, getFieldModifiers, getFields, getInstantiationTime, getStaticInstance, hasField, hashCode, ll, load, names, objectSize, print, save, asThis