:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-mira' .. highlight: bash bioconductor-mira ================= .. conda:recipe:: bioconductor-mira :replaces_section_title: :noindex: Methylation\-Based Inference of Regulatory Activity :homepage: https://bioconductor.org/packages/3.18/bioc/html/MIRA.html :license: GPL-3 :recipe: /`bioconductor-mira `_/`meta.yaml `_ DNA methylation contains information about the regulatory state of the cell. MIRA aggregates genome\-scale DNA methylation data into a DNA methylation profile for a given region set with shared biological annotation. Using this profile\, MIRA infers and scores the collective regulatory activity for the region set. MIRA facilitates regulatory analysis in situations where classical regulatory assays would be difficult and allows public sources of region sets to be leveraged for novel insight into the regulatory state of DNA methylation datasets. .. conda:package:: bioconductor-mira |downloads_bioconductor-mira| |docker_bioconductor-mira| :versions: .. raw:: html
1.24.0-01.22.0-01.20.0-01.16.0-01.14.0-01.12.0-11.12.0-01.10.0-01.8.0-0 ``1.24.0-0``,  ``1.22.0-0``,  ``1.20.0-0``,  ``1.16.0-0``,  ``1.14.0-0``,  ``1.12.0-1``,  ``1.12.0-0``,  ``1.10.0-0``,  ``1.8.0-0``,  ``1.6.0-1``,  ``1.4.0-0`` .. raw:: html
:depends bioconductor-biobase: ``>=2.62.0,<2.63.0`` :depends bioconductor-biocgenerics: ``>=0.48.0,<0.49.0`` :depends bioconductor-bsseq: ``>=1.38.0,<1.39.0`` :depends bioconductor-genomicranges: ``>=1.54.0,<1.55.0`` :depends bioconductor-iranges: ``>=2.36.0,<2.37.0`` :depends bioconductor-s4vectors: ``>=0.40.0,<0.41.0`` :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-data.table: :depends r-ggplot2: :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-mira and update with:: mamba update bioconductor-mira To create a new environment, run:: mamba create --name myenvname bioconductor-mira 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-mira: (see `bioconductor-mira/tags`_ for valid values for ````) .. |downloads_bioconductor-mira| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-mira.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-mira :alt: (downloads) .. |docker_bioconductor-mira| image:: https://quay.io/repository/biocontainers/bioconductor-mira/status :target: https://quay.io/repository/biocontainers/bioconductor-mira .. _`bioconductor-mira/tags`: https://quay.io/repository/biocontainers/bioconductor-mira?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-mira/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-mira/README.html