recipe bioconductor-methylgsa

Gene Set Analysis Using the Outcome of Differential Methylation

Homepage:

https://bioconductor.org/packages/3.16/bioc/html/methylGSA.html

License:

GPL-2

Recipe:

/bioconductor-methylgsa/meta.yaml

The main functions for methylGSA are methylglm and methylRRA. methylGSA implements logistic regression adjusting number of probes as a covariate. methylRRA adjusts multiple p-values of each gene by Robust Rank Aggregation. For more detailed help information, please see the vignette.

package bioconductor-methylgsa

Versions:

1.16.0-0,  1.10.0-0,  1.8.0-1,  1.8.0-0,  1.6.1-0,  1.4.0-0,  1.2.3-0,  1.0.2-0

Depends:

• bioconductor-annotationdbi >=1.60.0,<1.61.0

• bioconductor-biocparallel >=1.32.0,<1.33.0

• bioconductor-clusterprofiler >=4.6.0,<4.7.0

• bioconductor-go.db >=3.16.0,<3.17.0

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

• bioconductor-illuminahumanmethylationepicanno.ilm10b4.hg19 >=0.6.0,<0.7.0

• bioconductor-missmethyl >=1.32.0,<1.33.0

• bioconductor-org.hs.eg.db >=3.16.0,<3.17.0

• bioconductor-reactome.db >=1.82.0,<1.83.0

• r-base >=4.2,<4.3.0a0

• r-ggplot2

• r-robustrankaggreg

• r-shiny

• r-stringr

Required By:

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install bioconductor-methylgsa

and update with:

conda update bioconductor-methylgsa

or use the docker container:

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

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

Download stats

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