recipe bioconductor-magar

MAGAR: R-package to compute methylation Quantitative Trait Loci (methQTL) from DNA methylation and genotyping data

Homepage

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

License

GPL-3

Recipe

/bioconductor-magar/meta.yaml

"Methylation-Aware Genotype Association in R" (MAGAR) computes methQTL from DNA methylation and genotyping data from matched samples. MAGAR uses a linear modeling stragety to call CpGs/SNPs that are methQTLs. MAGAR accounts for the local correlation structure of CpGs.

package bioconductor-magar

Versions

1.2.0-0,  1.0.0-0

Depends

• bioconductor-crlmm >=1.52.0,<1.53.0

• bioconductor-hdf5array >=1.22.0,<1.23.0

• bioconductor-impute >=1.68.0,<1.69.0

• bioconductor-rnbeads >=2.12.0,<2.13.0

• bioconductor-rnbeads.hg19 >=1.26.0,<1.27.0

• bioconductor-snpstats >=1.44.0,<1.45.0

• r-argparse

• r-base >=4.1,<4.2.0a0

• r-bigstatsr

• r-data.table

• r-doparallel

• r-ff

• r-igraph

• r-jsonlite

• r-plyr

• r-reshape2

• r-rjson

• r-upsetr

Required By

Installation

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

conda install bioconductor-magar

and update with:

conda update bioconductor-magar

or use the docker container:

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

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

Download stats

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-magar/README.html)