Package: tilingArray
Version: 1.16.0
Title: Analysis of high-density oligonucleotide tiling arrays
Author: Wolfgang Huber, Joern Toedling, Matt Ritchie
Maintainer: W. Huber <huber@ebi.ac.uk>
Depends: R (>= 2.6.0), methods, Biobase (>= 1.15.27), affy (>= 1.15.7),
        RColorBrewer (>= 0.2-3), grid (>= 2.0.0), strucchange (>=
        1.3-0), vsn (>= 3.0.11), genefilter (>= 1.15.10), geneplotter
        (>= 1.15.7), pixmap (>= 0.4-4)
Suggests:
Description: The package provides some functionalities that can be
        useful for the analysis of high-density tiling microarray data
        (such as Affymetrix genechips) for measuring transcript
        abundance and architecture. The main functionalities of the
        package are: The class 'segmentation' for representing
        partitionings of a linear series of data. The functions
        'segment' for fitting piecewise constant models using a dynamic
        programming algorithm that is both fast and exact, and
        'confint' for calculating confidence intervals using the
        strucchange package. The function 'plotAlongChrom' for
        generating pretty plots. The function 'normalizeByReference'
        for probe-sequence dependent response adjustment from a (set
        of) reference hybridizations.
Reference: Huber W, Toedling J, Steinmetz, L. Transcript mapping with
        high-density oligonucleotide tiling arrays. Bioinformatics 22,
        1963-1970 (2006).
License: The Artistic License, Version 2.0
Collate: AllClasses.R AllGeneric.R normalizeByReference.R posMin.R
        otherStrand.R qcPlots.R comparisonPlot.R plotAlongChromLegend.R
        readCel2eSet.R confint.segmentation.R plotAlongChrom.R
        sampleStep.R costMatrix.R plotPenLL.R segChrom.R findsegments.R
        grid.image.R plotSegmentationDots.R plotSegmentationHeatmap.R
        PMindex.R methods-segmentation.R zzz.R
LazyLoad: Yes
biocViews: Microarray, OneChannel, Preprocessing, Visualization
Packaged: Thu Nov 15 14:56:04 2007; biocbuild
Built: R 2.6.0; universal-apple-darwin8.10.1; 2007-11-15 18:01:13; unix
