SampleNormalization: The SampleNormalization class

Description Usage Arguments Details Fields and Methods References See Also

Description

Package: NSA
Class SampleNormalization

Object
~~|
~~+--SampleNormalization

Directly known subclasses:

public static class SampleNormalization
extends Object

This class represents the Sample normalization method [1], which looks for normal regions within the tumoral samples.

Usage

1

Arguments

data

A named list with data set named "total" and "fracB" where the former should be of class AromaUnitTotalCnBinarySet and the latter of class AromaUnitFracBCnBinarySet. The two data sets must be for the same chip type, have the same number of samples and the same sample names.

tags

Tags added to the output data sets.

...

Not used.

Details

...

Fields and Methods

Methods:

findArraysTodo -
getDataSets -
getFullName -
getName -
getOutputDataSets -
getPath -
getRootPath -
getTags -
nbrOfFiles -
process Finds normal regions within tumoral samples.
setTags -

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

References

[1] ...

See Also

Low-level versions of the Sample normalization method is available via the sampleNByTotalAndFracB.numeric() methods.



Search within the NSA package
Search all R packages, documentation and source code

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.