MultisourceChromosomalModel: The MultisourceChromosomalModel class

In HenrikBengtsson/aroma.tcga: Methods for accessing online The Cancer Genome Atlas (TCGA) data

Description

Package: aroma.tcga
Class MultisourceChromosomalModel

Object
~~|
~~+--MultisourceChromosomalModel

Directly known subclasses:
MultisourceCopyNumberChromosomalModel, RawMultisourceCopyNumberModel

public abstract static class MultisourceChromosomalModel
extends Object

This abstract class represents a chromosomal model based on data from multiple sources (platforms, labs, methods, ...).

Usage

MultisourceChromosomalModel(dsList=NULL, tags="*", genome="Human", ...)

Arguments

dsList	A list of AromaUnitSignalBinarySet.
tags	A character vector of tags.
genome	A character string specifying what genome is process.
...	Not used.

Fields and Methods

Methods:

	clearCache	-
	fit	-
	getChipType	-
	getChipTypes	-
	getChromosomes	Gets the chromosomes available.
	getDataSetList	-
	getFullName	-
	getFullNames	-
	getGenome	-
	getName	-
	getNames	Gets the names of the arrays.
	getParentPath	-
	getPath	-
	getRootPath	-
	getTags	-
	indexOf	-
	nbrOfArrays	Gets the number of arrays.
	nbrOfSources	-
	setGenome	-
	setName	-

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

Requirements

This class requires genome information annotation files for every chip type.

Author(s)

Henrik Bengtsson (http://www.braju.com/R/)

HenrikBengtsson/aroma.tcga documentation built on May 7, 2019, 2:51 a.m.