SmoothMultiarrayModel: The SmoothMultiarrayModel class

In HenrikBengtsson/aroma.affymetrix: Analysis of Large Affymetrix Microarray Data Sets

The SmoothMultiarrayModel class

Description

Package: aroma.affymetrix
Class SmoothMultiarrayModel

Object
~~|
~~+--ChromosomalModel
~~~~~~~|
~~~~~~~+--SmoothMultiarrayModel

Directly known subclasses:
SmoothRmaModel, SmoothSaModel

public abstract static class SmoothMultiarrayModel
extends ChromosomalModel

This abstract class represents a chromosomal smoothing method done chromosome by chromosome.

Usage

SmoothMultiarrayModel(..., typoOfWeights=c("none", "1/s2"), bandwidth=10000, tags="*")

Arguments

...	Arguments passed to the constructor of ChromosomalModel.
typoOfWeights	A character string.
bandwidth	A single numeric specifying the smoothing bandwidth in units of nucleotides.
tags	A character vector of tags to be added.

Fields and Methods

Methods:

	getBandwidth	-
	getOutputTuple	-
	setBandwidth	-

Methods inherited from ChromosomalModel:
as.character, fit, getAlias, getAromaGenomeTextFile, getAsteriskTags, getChipType, getChipTypes, getChromosomes, getFullName, getFullNames, getGenome, getGenomeData, getGenomeFile, getListOfAromaUgpFiles, getName, getNames, getParentPath, getPath, getReportPath, getRootPath, getSetTuple, getSets, getTags, indexOf, nbrOfArrays, nbrOfChipTypes, setChromosomes, setGenome, getListOfGenomeInformations, getPcuTheta, getPositionChipTypeUnit

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

Author(s)

Henrik Bengtsson

See Also

CopyNumberSegmentationModel.

HenrikBengtsson/aroma.affymetrix documentation built on Feb. 20, 2024, 9:07 p.m.