turbonorm-package: A fast scatterplot smoother with applications for microarray...
In TurboNorm: A fast scatterplot smoother suitable for microarray normalization

Description Details Note Author(s) References See Also

A fast scatterplot smoother based on B-splines with second order difference penalty. Functions for microarray normalization of single-colour data i.e. Affymetrix/Illumina and two-colour data supplied as marray MarrayRaw-objects or limma RGList-objects are available.

Package:	TurboNorm
Type:	Package
Version:	1.7.2
Date:	2013-29-01
License:	LGPL
LazyLoad:	yes

This package contains an implementation of piecewise constant P-splines of Eilers and Marx (1996) that can be used for normalization of either single- or two-colour data. For two-colour data objects of type RGList from the limma package and MarrayRaw from the package marray can be normalized using the function pspline(). For single colour microarray data wrapper functions are written based on the affy package functions normalize.loess() and normalize.AffyBatch.loess() namely normalize.pspline() and normalize.AffyBatch.pspline(). Also a panel.pspline() is available for adding the smoothed curve to lattice graphics panels.

The package pspline (S original by Jim Ramsey, R port by Brian Ripley) implements the B-spline/Natural Cubic Spline smoother

Chantal van Leeuwen and Maarten van Iterson Maintainer: Maarten van Iterson<mviterson@gmail.com>

van Iterson M, Duijkers FA, Meijerink JP, Admiraal P, van Ommen GJ, Boer JM, van Noesel MM, Menezes RX (2012). A novel and fast normalization method for high-density arrays. SAGMB, 11(4).

Paul .H.C. Eilers and Brain D. Marx (1996). Flexible smoothing with B-splines and Penalties. Statistical Science, Vol 11, No. 2, 89-121.

turbotrend, pspline, normalize.pspline, normalize.AffyBatch.pspline, panel.pspline

TurboNorm documentation built on Nov. 8, 2020, 6:46 p.m.