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

.. title:: Package Recipe 'r-isogene'
.. highlight: bash

r-isogene
=========

.. conda:recipe:: r-isogene
   :replaces_section_title:
   :noindex:

   Offers framework for testing for monotonic relationship between gene expression and doses in a microarray experiment. Several testing procedures including the global likelihood\-ratio test \(Bartholomew\, 1961\)\, Williams \(1971\, 1972\)\, Marcus \(1976\)\, M \(Hu et al. 2005\) and the modified M \(Lin et al. 2007\) are used to test for the monotonic trend in gene expression with respect to doses. BH \(Benjamini and Hochberg 1995\) and BY \(Benjamini and Yekutieli 2004\) FDR controlling procedures are applied to adjust the raw p\-values obtained from the permutations.   

   :homepage: https://CRAN.R-project.org/package=IsoGene
   :license: GPL3 / GPL-3
   :recipe: /`r-isogene <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/r-isogene>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/r-isogene/meta.yaml>`_

   


.. conda:package:: r-isogene

   |downloads_r-isogene| |docker_r-isogene|

   :versions:
      
      

      ``1.0_24-7``,  ``1.0_24-6``,  ``1.0_24-5``,  ``1.0_24-4``,  ``1.0_24-3``,  ``1.0_24-2``,  ``1.0_24-1``,  ``1.0_24-0``

      

   
   :depends bioconductor-affy: 
   :depends bioconductor-biobase: 
   :depends r-base: ``>=4.3,<4.4.0a0``
   :depends r-ff: ``>=2.0.0``
   :depends r-iso: 
   :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 r-isogene

   and update with::

      mamba update r-isogene

  To create a new environment, run::

      mamba create --name myenvname r-isogene

  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/r-isogene:<tag>

   (see `r-isogene/tags`_ for valid values for ``<tag>``)


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


.. raw:: html

    <script>
        var package = "r-isogene";
        var versions = ["1.0_24","1.0_24","1.0_24","1.0_24","1.0_24"];
    </script>






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

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

Link to this page
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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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