recipe bioconductor-elmer

Inferring Regulatory Element Landscapes and Transcription Factor Networks Using Cancer Methylomes

Homepage:

https://bioconductor.org/packages/3.16/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:

2.22.0-0,  2.18.0-0,  2.16.0-0,  2.14.0-1,  2.14.0-0,  2.12.0-0,  2.9.5-1,  2.8.0-1,  2.6.1-0, 

2.22.0-0,  2.18.0-0,  2.16.0-0,  2.14.0-1,  2.14.0-0,  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 >=2.54.0,<2.55.0

• bioconductor-complexheatmap >=2.14.0,<2.15.0

• bioconductor-delayedarray >=0.24.0,<0.25.0

• bioconductor-elmer.data >=2.22.0,<2.23.0

• bioconductor-genomeinfodb >=1.34.0,<1.35.0

• bioconductor-genomicfeatures >=1.50.0,<1.51.0

• bioconductor-genomicranges >=1.50.0,<1.51.0

• bioconductor-gviz >=1.42.0,<1.43.0

• bioconductor-iranges >=2.32.0,<2.33.0

• bioconductor-multiassayexperiment >=1.24.0,<1.25.0

• bioconductor-rtracklayer >=1.58.0,<1.59.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• bioconductor-summarizedexperiment >=1.28.0,<1.29.0

• bioconductor-tcgabiolinks >=2.25.0,<2.26.0

• r-base >=4.2,<4.3.0a0

• 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 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>)

Download stats

Link to this page

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