:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-comet' .. highlight: bash bioconductor-comet ================== .. conda:recipe:: bioconductor-comet :replaces_section_title: :noindex: coMET\: visualisation of regional epigenome\-wide association scan \(EWAS\) results and DNA co\-methylation patterns :homepage: https://bioconductor.org/packages/3.18/bioc/html/coMET.html :license: GPL (>= 2) :recipe: /`bioconductor-comet `_/`meta.yaml `_ Visualisation of EWAS results in a genomic region. In addition to phenotype\-association P\-values\, coMET also generates plots of co\-methylation patterns and provides a series of annotation tracks. It can be used to other omic\-wide association scans as lon\:g as the data can be translated to genomic level and for any species. .. conda:package:: bioconductor-comet |downloads_bioconductor-comet| |docker_bioconductor-comet| :versions: .. raw:: html
1.34.0-01.32.0-01.30.0-01.26.0-01.24.0-01.22.0-11.22.0-01.20.0-01.18.0-0 ``1.34.0-0``,  ``1.32.0-0``,  ``1.30.0-0``,  ``1.26.0-0``,  ``1.24.0-0``,  ``1.22.0-1``,  ``1.22.0-0``,  ``1.20.0-0``,  ``1.18.0-0``,  ``1.16.0-1``,  ``1.14.0-0`` .. raw:: html
:depends bioconductor-biomart: ``>=2.58.0,<2.59.0`` :depends bioconductor-genomicranges: ``>=1.54.0,<1.55.0`` :depends bioconductor-gviz: ``>=1.46.0,<1.47.0`` :depends bioconductor-iranges: ``>=2.36.0,<2.37.0`` :depends bioconductor-rtracklayer: ``>=1.62.0,<1.63.0`` :depends bioconductor-s4vectors: ``>=0.40.0,<0.41.0`` :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-corrplot: :depends r-gridextra: :depends r-hash: :depends r-psych: :requirements: .. rubric:: Installation You need a conda-compatible package manager (currently either `micromamba `_, `mamba `_, or `conda `_) and the Bioconda channel already activated (see :ref:`set-up-channels`). While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see `here `_ for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others. Given that you already have a conda environment in which you want to have this package, install with:: mamba install bioconductor-comet and update with:: mamba update bioconductor-comet To create a new environment, run:: mamba create --name myenvname bioconductor-comet with ``myenvname`` being a reasonable name for the environment (see e.g. the `mamba docs `_ for details and further options). Alternatively, use the docker container:: docker pull quay.io/biocontainers/bioconductor-comet: (see `bioconductor-comet/tags`_ for valid values for ````) .. |downloads_bioconductor-comet| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-comet.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-comet :alt: (downloads) .. |docker_bioconductor-comet| image:: https://quay.io/repository/biocontainers/bioconductor-comet/status :target: https://quay.io/repository/biocontainers/bioconductor-comet .. _`bioconductor-comet/tags`: https://quay.io/repository/biocontainers/bioconductor-comet?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-comet/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-comet/README.html