:orphan:  .. only available via index, not via toctree

.. title:: Package Recipe 'bioconductor-meal'
.. highlight: bash

bioconductor-meal
=================

.. conda:recipe:: bioconductor-meal
   :replaces_section_title:
   :noindex:

   Perform methylation analysis

   :homepage: https://bioconductor.org/packages/3.18/bioc/html/MEAL.html
   :license: Artistic-2.0
   :recipe: /`bioconductor-meal <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-meal>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-meal/meta.yaml>`_

   Package to integrate methylation and expression data. It can also perform methylation or expression analysis alone. Several plotting functionalities are included as well as a new region analysis based on redundancy analysis. Effect of SNPs on a region can also be estimated.


.. conda:package:: bioconductor-meal

   |downloads_bioconductor-meal| |docker_bioconductor-meal|

   :versions:
      
      

      ``1.28.0-0``,  ``1.22.0-0``,  ``1.20.3-0``,  ``1.20.0-0``,  ``1.18.0-0``,  ``1.15.0-0``,  ``1.14.0-1``,  ``1.12.0-0``

      

   
   :depends bioconductor-biobase: ``>=2.58.0,<2.59.0``
   :depends bioconductor-biocgenerics: ``>=0.44.0,<0.45.0``
   :depends bioconductor-genomicranges: ``>=1.50.0,<1.51.0``
   :depends bioconductor-gviz: ``>=1.42.0,<1.43.0``
   :depends bioconductor-iranges: ``>=2.32.0,<2.33.0``
   :depends bioconductor-limma: ``>=3.54.0,<3.55.0``
   :depends bioconductor-minfi: ``>=1.44.0,<1.45.0``
   :depends bioconductor-missmethyl: ``>=1.32.0,<1.33.0``
   :depends bioconductor-multidataset: ``>=1.26.0,<1.27.0``
   :depends bioconductor-s4vectors: ``>=0.36.0,<0.37.0``
   :depends bioconductor-summarizedexperiment: ``>=1.28.0,<1.29.0``
   :depends r-base: ``>=4.2,<4.3.0a0``
   :depends r-ggplot2: ``>=2.0.0``
   :depends r-isva: 
   :depends r-matrixstats: 
   :depends r-permute: 
   :depends r-smartsva: 
   :depends r-vegan: 
   :requirements:

   .. rubric:: Installation

  You need a conda-compatible package manager
  (currently either `micromamba <https://mamba.readthedocs.io>`_, `mamba <https://mamba.readthedocs.io>`_, or `conda <https://docs.conda.io/projects/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 <https://mamba.readthedocs.io>`_ 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-meal

   and update with::

      mamba update bioconductor-meal

  To create a new environment, run::

      mamba create --name myenvname bioconductor-meal

  with ``myenvname`` being a reasonable name for the environment
  (see e.g. the `mamba docs <https://mamba.readthedocs.io>`_ for details and further options).

  Alternatively, use the docker container::

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

   (see `bioconductor-meal/tags`_ for valid values for ``<tag>``)


.. |downloads_bioconductor-meal| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-meal.svg?style=flat
   :target: https://anaconda.org/bioconda/bioconductor-meal
   :alt:   (downloads)
.. |docker_bioconductor-meal| image:: https://quay.io/repository/biocontainers/bioconductor-meal/status
   :target: https://quay.io/repository/biocontainers/bioconductor-meal
.. _`bioconductor-meal/tags`: https://quay.io/repository/biocontainers/bioconductor-meal?tab=tags


.. raw:: html

    <script>
        var package = "bioconductor-meal";
        var versions = ["1.28.0","1.22.0","1.20.3","1.20.0","1.18.0"];
    </script>






Download stats
-----------------

.. raw:: html
    :file: ../../templates/package_dashboard.html

Link to this page
-----------------

Render an |install-with-bioconda| badge with the following MarkDown::

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.. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat
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