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

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

bioconductor-mlseq
==================

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

   Machine Learning Interface for RNA\-Seq Data

   :homepage: https://bioconductor.org/packages/3.18/bioc/html/MLSeq.html
   :license: GPL(>=2)
   :recipe: /`bioconductor-mlseq <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-mlseq>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-mlseq/meta.yaml>`_
   :links: biotools: :biotools:`mlseq`, doi: :doi:`10.1038/nmeth.3252`

   This package applies several machine learning methods\, including SVM\, bagSVM\, Random Forest and CART to RNA\-Seq data.


.. conda:package:: bioconductor-mlseq

   |downloads_bioconductor-mlseq| |docker_bioconductor-mlseq|

   :versions:
      
      
      .. raw:: html

         <details><summary><span class="truncated-version-list"><code>2.20.0-0</code>,  <code>2.18.0-0</code>,  <code>2.16.0-0</code>,  <code>2.12.0-0</code>,  <code>2.10.0-0</code>,  <code>2.8.0-1</code>,  <code>2.8.0-0</code>,  <code>2.6.0-0</code>,  <code>2.4.0-0</code>,  </span></summary>
      

      ``2.20.0-0``,  ``2.18.0-0``,  ``2.16.0-0``,  ``2.12.0-0``,  ``2.10.0-0``,  ``2.8.0-1``,  ``2.8.0-0``,  ``2.6.0-0``,  ``2.4.0-0``,  ``2.2.1-1``,  ``2.0.0-0``,  ``1.20.3-0``,  ``1.18.0-0``

      
      .. raw:: html

         </details>
      

   
   :depends bioconductor-biobase: ``>=2.62.0,<2.63.0``
   :depends bioconductor-deseq2: ``>=1.42.0,<1.43.0``
   :depends bioconductor-edger: ``>=4.0.0,<4.1.0``
   :depends bioconductor-limma: ``>=3.58.0,<3.59.0``
   :depends bioconductor-sseq: ``>=1.40.0,<1.41.0``
   :depends bioconductor-summarizedexperiment: ``>=1.32.0,<1.33.0``
   :depends r-base: ``>=4.3,<4.4.0a0``
   :depends r-caret: 
   :depends r-foreach: 
   :depends r-ggplot2: 
   :depends r-pamr: 
   :depends r-plyr: 
   :depends r-testthat: 
   :depends r-venndiagram: 
   :depends r-xtable: 
   :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-mlseq

   and update with::

      mamba update bioconductor-mlseq

  To create a new environment, run::

      mamba create --name myenvname bioconductor-mlseq

  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-mlseq:<tag>

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


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


.. raw:: html

    <script>
        var package = "bioconductor-mlseq";
        var versions = ["2.20.0","2.18.0","2.16.0","2.12.0","2.10.0"];
    </script>






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

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

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

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