recipe bioconductor-simd

Statistical Inferences with MeDIP-seq Data (SIMD) to infer the methylation level for each CpG site

Homepage

https://bioconductor.org/packages/3.14/bioc/html/SIMD.html

License

GPL-3

Recipe

/bioconductor-simd/meta.yaml

This package provides a inferential analysis method for detecting differentially expressed CpG sites in MeDIP-seq data. It uses statistical framework and EM algorithm, to identify differentially expressed CpG sites. The methods on this package are described in the article 'Methylation-level Inferences and Detection of Differential Methylation with Medip-seq Data' by Yan Zhou, Jiadi Zhu, Mingtao Zhao, Baoxue Zhang, Chunfu Jiang and Xiyan Yang (2018, pending publication).

package bioconductor-simd

Versions

1.12.0-1,  1.12.0-0,  1.10.0-0,  1.8.0-1,  1.8.0-0,  1.6.0-0,  1.4.0-0,  1.2.0-1,  1.2.0-0, 

1.12.0-1,  1.12.0-0,  1.10.0-0,  1.8.0-1,  1.8.0-0,  1.6.0-0,  1.4.0-0,  1.2.0-1,  1.2.0-0,  1.0.0-0

Depends

• bioconductor-edger >=3.36.0,<3.37.0

• bioconductor-methylmnm >=1.32.0,<1.33.0

• libblas >=3.8.0,<4.0a0

• libgcc-ng >=10.3.0

• liblapack >=3.8.0,<4.0a0

• r-base >=4.1,<4.2.0a0

• r-statmod

Required By

Installation

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

conda install bioconductor-simd

and update with:

conda update bioconductor-simd

or use the docker container:

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

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

Download stats

Link to this page

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