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

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

bioconductor-adamgui
====================

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

   Activity and Diversity Analysis Module Graphical User Interface

   :homepage: https://bioconductor.org/packages/3.18/bioc/html/ADAMgui.html
   :license: GPL (>= 2)
   :recipe: /`bioconductor-adamgui <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-adamgui>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-adamgui/meta.yaml>`_

   ADAMgui is a Graphical User Interface for the ADAM package. The ADAMgui package provides 2 shiny\-based applications that allows the user to study the output of the ADAM package files through different plots. It\'s possible\, for example\, to choose a specific GFAG and observe the gene expression behavior with the plots created with the GFAGtargetUi function. Features such as differential expression and foldchange can be easily seen with aid of the plots made with GFAGpathUi function.


.. conda:package:: bioconductor-adamgui

   |downloads_bioconductor-adamgui| |docker_bioconductor-adamgui|

   :versions:
      
      
      .. raw:: html

         <details><summary><span class="truncated-version-list"><code>1.18.0-0</code>,  <code>1.16.0-0</code>,  <code>1.14.0-0</code>,  <code>1.10.0-0</code>,  <code>1.8.0-0</code>,  <code>1.6.0-1</code>,  <code>1.6.0-0</code>,  <code>1.4.0-0</code>,  <code>1.2.0-0</code>,  </span></summary>
      

      ``1.18.0-0``,  ``1.16.0-0``,  ``1.14.0-0``,  ``1.10.0-0``,  ``1.8.0-0``,  ``1.6.0-1``,  ``1.6.0-0``,  ``1.4.0-0``,  ``1.2.0-0``,  ``1.0.0-1``

      
      .. raw:: html

         </details>
      

   
   :depends bioconductor-adam: ``>=1.18.0,<1.19.0``
   :depends bioconductor-go.db: ``>=3.18.0,<3.19.0``
   :depends r-base: ``>=4.3,<4.4.0a0``
   :depends r-colorramps: ``>=2.3``
   :depends r-data.table: ``>=1.11.4``
   :depends r-dplyr: ``>=0.7.6``
   :depends r-dt: ``>=0.4``
   :depends r-ggplot2: ``>=3.0.0``
   :depends r-ggpubr: ``>=0.1.8``
   :depends r-ggrepel: ``>=0.8.0``
   :depends r-ggsignif: ``>=0.4.0``
   :depends r-gridextra: ``>=2.3``
   :depends r-knitr: 
   :depends r-rcolorbrewer: ``>=1.1-2``
   :depends r-reshape2: ``>=1.4.3``
   :depends r-shiny: ``>=1.1.0``
   :depends r-shinyjs: ``>=1.0``
   :depends r-stringi: ``>=1.2.4``
   :depends r-stringr: ``>=1.3.1``
   :depends r-testthat: 
   :depends r-varhandle: ``>=2.0.3``
   :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-adamgui

   and update with::

      mamba update bioconductor-adamgui

  To create a new environment, run::

      mamba create --name myenvname bioconductor-adamgui

  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-adamgui:<tag>

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


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


.. raw:: html

    <script>
        var package = "bioconductor-adamgui";
        var versions = ["1.18.0","1.16.0","1.14.0","1.10.0","1.8.0"];
    </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
   :target: http://bioconda.github.io/recipes/bioconductor-adamgui/README.html