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aroma.cn (version 0.5.0)
Copy-number analysis of large microarray data sets
Description
Package for analysis of copy-number estimates obtained from various platforms.
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install.packages('aroma.cn')
Monthly Downloads
524
Version
0.5.0
License
LGPL (>= 2.1)
Maintainer
Henrik Bengtsson
Last Published
May 16th, 2010
Functions in aroma.cn (0.5.0)
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MultiSourceCopyNumberNormalization
The MultiSourceCopyNumberNormalization class
getFitAromaUgpFile.MultiSourceCopyNumberNormalization
Gets the UGP file specifying the common set of loci to normalize at
getInputDataSets.MultiSourceCopyNumberNormalization
Gets the list of data sets to be normalized
XYCurveNormalization
The XYCurveNormalization class
callXXorXY.numeric
Calls XX or XY from ChrX allele B fractions of a normal sample
TotalCnSmoothing
The abstract TotalCnSmoothing class
getSmoothedDataSets.MultiSourceCopyNumberNormalization
Gets the data sets smoothed toward the UGP file
TumorBoostNormalization
The TumorBoostNormalization class
AbstractCurveNormalization
The AbstractCurveNormalization class
process.MultiSourceCopyNumberNormalization
Normalizes all samples
Non-documented objects
Non-documented objects
PrincipalCurveNormalization
The PrincipalCurveNormalization class
aroma.cn-package
Package aroma.cn
getAllNames.MultiSourceCopyNumberNormalization
Gets the names of all unique samples across all sources
fitOne.MultiSourceCopyNumberNormalization
Fits the multi-source model for one sample
getSubsetToFit.MultiSourceCopyNumberNormalization
Gets subset of (smoothing) units for fitting the model
extractTupleOfDataFiles.MultiSourceCopyNumberNormalization
Gets a list of data files for a particular name across several data sets
TotalCnKernelSmoothing
The TotalCnKernelSmoothing class