SNPsNormalization: The SNPsNormalization class

Description Usage Arguments Details Fields and Methods References See Also


Package: NSA
Class SNPsNormalization


Directly known subclasses:

public static class SNPsNormalization
extends Object

This class represents the SNPs normalization method [1], which corrects for SNP effects in allele-specific copy-number estimates (ASCNs).





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 added to the output data sets.


Not used.



Fields and Methods


findUnitsTodo -
getDataSets -
getFullName -
getName -
getOutputDataSets -
getPath -
getRootPath -
getTags -
nbrOfFiles -
process -
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


[1] ...

See Also

Low-level versions of the SNPs normalization method is available via snpsNByTotalAndFracB.matrix() methods.

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