recipe bioconductor-remp

Machine learning-based tools to predict DNA methylation of locus-specific repetitive elements (RE) by learning surrounding genetic and epigenetic information. These tools provide genomewide and single-base resolution of DNA methylation prediction on RE that are difficult to measure using array-based or sequencing-based platforms, which enables epigenome-wide association study (EWAS) and differentially methylated region (DMR) analysis on RE.

Homepage

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

License

GPL-3

Recipe

/bioconductor-remp/meta.yaml

package bioconductor-remp

Versions

1.8.1-1

Depends

• bioconductor-annotationhub >=2.16.0,<2.17.0

• bioconductor-biocgenerics >=0.30.0,<0.31.0

• bioconductor-biocparallel >=1.18.0,<1.19.0

• bioconductor-biostrings >=2.52.0,<2.53.0

• bioconductor-bsgenome >=1.52.0,<1.53.0

• bioconductor-bsgenome.hsapiens.ucsc.hg19 >=1.4.0,<1.5.0

• bioconductor-genomicranges >=1.36.0,<1.37.0

• bioconductor-illuminahumanmethylation450kanno.ilmn12.hg19 >=0.6.0,<0.7.0

• bioconductor-illuminahumanmethylationepicanno.ilm10b2.hg19 >=0.6.0,<0.7.0

• bioconductor-impute >=1.58.0,<1.59.0

• bioconductor-iranges >=2.18.0,<2.19.0

• bioconductor-minfi >=1.30.0,<1.31.0

• bioconductor-org.hs.eg.db >=3.8.0,<3.9.0

• bioconductor-s4vectors >=0.22.0,<0.23.0

• bioconductor-summarizedexperiment >=1.14.0,<1.15.0

• r-base >=3.6,<3.7.0a0

• r-caret

• r-doparallel

• r-foreach

• r-iterators

• r-kernlab

• r-ranger

• r-settings

Required By

Installation

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

conda install bioconductor-remp

and update with:

conda update bioconductor-remp

or use the docker container:

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

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

Link to this page

Render an badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-remp/README.html)