recipe bioconductor-tilingarray

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.

Homepage

https://bioconductor.org/packages/3.9/bioc/html/tilingArray.html

License

Artistic-2.0

Recipe

/bioconductor-tilingarray/meta.yaml

package bioconductor-tilingarray

(downloads) docker_bioconductor-tilingarray

Versions

1.60.0-0

Depends bioconductor-affy

>=1.60.0,<1.61.0

Depends bioconductor-biobase

>=2.42.0,<2.43.0

Depends bioconductor-genefilter

>=1.64.0,<1.65.0

Depends bioconductor-vsn

>=3.50.0,<3.51.0

Depends libgcc-ng

>=7.3.0

Depends r-base

>=3.5.1,<3.5.2.0a0

Depends r-pixmap

Depends r-rcolorbrewer

Depends r-strucchange

Requirements

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-tilingarray

and update with:

conda update bioconductor-tilingarray

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-tilingarray:<tag>

(see bioconductor-tilingarray/tags for valid values for <tag>)