:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-methylgsa' .. highlight: bash bioconductor-methylgsa ====================== .. conda:recipe:: bioconductor-methylgsa :replaces_section_title: :noindex: Gene Set Analysis Using the Outcome of Differential Methylation :homepage: https://bioconductor.org/packages/3.14/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. .. conda:package:: bioconductor-methylgsa |downloads_bioconductor-methylgsa| |docker_bioconductor-methylgsa| :versions: ``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: ``>=1.54.0,<1.55.0`` :depends bioconductor-biocparallel: ``>=1.26.0,<1.27.0`` :depends bioconductor-clusterprofiler: ``>=4.0.0,<4.1.0`` :depends bioconductor-go.db: ``>=3.13.0,<3.14.0`` :depends bioconductor-illuminahumanmethylation450kanno.ilmn12.hg19: ``>=0.6.0,<0.7.0`` :depends bioconductor-illuminahumanmethylationepicanno.ilm10b4.hg19: ``>=0.6.0,<0.7.0`` :depends bioconductor-missmethyl: ``>=1.26.0,<1.27.0`` :depends bioconductor-org.hs.eg.db: ``>=3.13.0,<3.14.0`` :depends bioconductor-reactome.db: ``>=1.76.0,<1.77.0`` :depends r-base: ``>=4.1,<4.2.0a0`` :depends r-ggplot2: :depends r-robustrankaggreg: :depends r-shiny: :depends r-stringr: :requirements: .. rubric:: Installation With an activated Bioconda channel (see :ref:`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: (see `bioconductor-methylgsa/tags`_ for valid values for ````) .. |downloads_bioconductor-methylgsa| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-methylgsa.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-methylgsa :alt: (downloads) .. |docker_bioconductor-methylgsa| image:: https://quay.io/repository/biocontainers/bioconductor-methylgsa/status :target: https://quay.io/repository/biocontainers/bioconductor-methylgsa .. _`bioconductor-methylgsa/tags`: https://quay.io/repository/biocontainers/bioconductor-methylgsa?tab=tags .. raw:: html Download stats ----------------- .. raw:: html :file: ../../templates/package_dashboard.html Link to this page ----------------- Render an |install-with-bioconda| 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-methylgsa/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/bioconductor-methylgsa/README.html