The package provides functionality that can be useful for the analysis of highdensity tiling microarray data (such as from Affymetrix genechips) for measuring transcript abundance and architecture. The main functionalities of the package are: 1. the class 'segmentation' for representing partitionings of a linear series of data; 2. the function 'segment' for fitting piecewise constant models using a dynamic programming algorithm that is both fast and exact; 3. the function 'confint' for calculating confidence intervals using the strucchange package; 4. the function 'plotAlongChrom' for generating pretty plots; 5. the function 'normalizeByReference' for probesequence dependent response adjustment from a (set of) reference hybridizations.
Package details 


Author  Wolfgang Huber, Zhenyu Xu, Joern Toedling with contributions from Matt Ritchie 
Bioconductor views  Microarray OneChannel Preprocessing Visualization 
Maintainer  Zhenyu Xu <[email protected]> 
License  Artistic2.0 
Version  1.60.0 
Package repository  View on Bioconductor 
Installation 
Install the latest version of this package by entering the following in R:

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