recipe bioconductor-elmer

Inferring Regulatory Element Landscapes and Transcription Factor Networks Using Cancer Methylomes

Homepage

https://bioconductor.org/packages/3.11/bioc/html/ELMER.html

License

GPL-3

Recipe

/bioconductor-elmer/meta.yaml

ELMER is designed to use DNA methylation and gene expression from a large number of samples to infere regulatory element landscape and transcription factor network in primary tissue.

package bioconductor-elmer

Versions

2.12.0-0, 2.9.5-1, 2.8.0-1, 2.6.1-0, 2.4.4-1, 2.4.4-0

Depends

• bioconductor-biomart >=2.44.0,<2.45.0

• bioconductor-complexheatmap >=2.4.0,<2.5.0

• bioconductor-delayedarray >=0.14.0,<0.15.0

• bioconductor-elmer.data >=2.12.0,<2.13.0

• bioconductor-genomeinfodb >=1.24.0,<1.25.0

• bioconductor-genomicfeatures >=1.40.0,<1.41.0

• bioconductor-genomicranges >=1.40.0,<1.41.0

• bioconductor-gviz >=1.32.0,<1.33.0

• bioconductor-iranges >=2.22.0,<2.23.0

• bioconductor-multiassayexperiment >=1.14.0,<1.15.0

• bioconductor-rtracklayer >=1.48.0,<1.49.0

• bioconductor-s4vectors >=0.26.0,<0.27.0

• bioconductor-summarizedexperiment >=1.18.0,<1.19.0

• bioconductor-tcgabiolinks >=2.16.0,<2.17.0

• r-base >=4.0,<4.1.0a0

• r-circlize

• r-doparallel

• r-downloader

• r-dplyr

• r-ggplot2

• r-ggpubr

• r-ggrepel

• r-gridextra

• r-lattice

• r-magrittr

• r-matrix

• r-plotly

• r-plyr

• r-progress

• r-purrr

• r-readr

• r-reshape

• r-reshape2

• r-rmarkdown

• r-rvest

• r-scales

• r-stringr

• r-tibble

• r-tidyr

• r-xml2

Required By

• bioconductor-tcgabiolinksgui

Installation

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

conda install bioconductor-elmer

and update with:

conda update bioconductor-elmer

or use the docker container:

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

(see bioconductor-elmer/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-elmer/README.html)