recipe bioconductor-adacgh2

Analysis of big data from aCGH experiments using parallel computing and ff objects

Homepage

https://bioconductor.org/packages/3.12/bioc/html/ADaCGH2.html

License

GPL (>= 3)

Recipe

/bioconductor-adacgh2/meta.yaml

Analysis and plotting of array CGH data. Allows usage of Circular Binary Segementation, wavelet-based smoothing (both as in Liu et al., and HaarSeg as in Ben-Yaacov and Eldar), HMM, BioHMM, GLAD, CGHseg. Most computations are parallelized (either via forking or with clusters, including MPI and sockets clusters) and use ff for storing data.

package bioconductor-adacgh2

Versions

2.30.0-0,  2.28.0-0,  2.26.0-0,  2.24.0-1

Depends

• bioconductor-acgh >=1.68.0,<1.69.0

• bioconductor-dnacopy >=1.64.0,<1.65.0

• bioconductor-glad >=2.54.0,<2.55.0

• bioconductor-snapcgh >=1.60.0,<1.61.0

• bioconductor-tilingarray >=1.68.0,<1.69.0

• libblas >=3.8.0,<4.0a0

• libgcc-ng >=7.5.0

• liblapack >=3.8.0,<4.0a0

• r-base >=4.0,<4.1.0a0

• r-bit

• r-cluster

• r-ff

• r-ffbase

• r-waveslim

Required By

Installation

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

conda install bioconductor-adacgh2

and update with:

conda update bioconductor-adacgh2

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-adacgh2:<tag>

(see bioconductor-adacgh2/tags for valid values for <tag>)

Link to this page

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