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

Description Usage Arguments Fields and Methods Requirements Author(s)

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, ...).

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

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

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

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

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

aroma.tcga documentation built on May 2, 2019, 4:09 p.m.