DOI: 10.18129/B9.bioc.tilingArray  

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see tilingArray.

Transcript mapping with high-density oligonucleotide tiling arrays

Bioconductor version: 3.16

The package provides functionality that can be useful for the analysis of high-density 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 probe-sequence dependent response adjustment from a (set of) reference hybridizations.

Author: Wolfgang Huber, Zhenyu Xu, Joern Toedling with contributions from Matt Ritchie

Maintainer: Zhenyu Xu <zxu at embl.de>

Citation (from within R, enter citation("tilingArray")):


To install this package, start R (version "4.2") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:



PDF R Script Introduction to the plotAlongChrom function
PDF R Script Introduction to using the segment function to fit a piecewise constant curve
PDF Normalisation with the normalizeByReference function in the tilingArray package
PDF Segmentation demo
PDF Supplement. Calculation of the cost matrix
PDF   Reference Manual


biocViews Microarray, OneChannel, Preprocessing, Software, Visualization
Version 1.76.0
In Bioconductor since BioC 1.6 (R-2.1) or earlier (> 18 years)
License Artistic-2.0
Depends R (>= 2.11.0), Biobase, methods, pixmap
Imports strucchange, affy, vsn, genefilter, RColorBrewer, grid, stats4
Depends On Me davidTiling
Imports Me ADaCGH2, snapCGH
Suggests Me
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package tilingArray_1.76.0.tar.gz
Windows Binary tilingArray_1.76.0.zip (64-bit only)
macOS Binary (x86_64) tilingArray_1.76.0.tgz
macOS Binary (arm64) tilingArray_1.76.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/tilingArray
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/tilingArray
Bioc Package Browser https://code.bioconductor.org/browse/tilingArray/
Package Short Url https://bioconductor.org/packages/tilingArray/
Package Downloads Report Download Stats

Documentation »


R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: