recipe bioconductor-tilingarray

Transcript mapping with high-density oligonucleotide tiling arrays

Homepage:

https://bioconductor.org/packages/3.16/bioc/html/tilingArray.html

License:

Artistic-2.0

Recipe:

/bioconductor-tilingarray/meta.yaml

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.

package bioconductor-tilingarray

Versions:

1.76.0-1,  1.76.0-0,  1.72.0-2,  1.72.0-1,  1.72.0-0,  1.70.0-0,  1.68.0-1,  1.68.0-0,  1.66.0-0, 

1.76.0-1,  1.76.0-0,  1.72.0-2,  1.72.0-1,  1.72.0-0,  1.70.0-0,  1.68.0-1,  1.68.0-0,  1.66.0-0,  1.64.0-0,  1.62.0-1,  1.60.0-0

Depends:

• bioconductor-affy >=1.76.0,<1.77.0

• bioconductor-biobase >=2.58.0,<2.59.0

• bioconductor-genefilter >=1.80.0,<1.81.0

• bioconductor-vsn >=3.66.0,<3.67.0

• libblas >=3.9.0,<4.0a0

• libgcc-ng >=12

• liblapack >=3.9.0,<4.0a0

• r-base >=4.2,<4.3.0a0

• r-pixmap

• r-rcolorbrewer

• r-strucchange

Required By:

• bioconductor-snapcgh

• bioconductor-adacgh2

• bioconductor-davidtiling

Installation

With an activated Bioconda channel (see 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>)

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