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

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

bioconductor-ggbio
==================

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

   Visualization tools for genomic data

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

   The ggbio package extends and specializes the grammar of graphics for biological data. The graphics are designed to answer common scientific questions\, in particular those often asked of high throughput genomics data. All core Bioconductor data structures are supported\, where appropriate. The package supports detailed views of particular genomic regions\, as well as genome\-wide overviews. Supported overviews include ideograms and grand linear views. High\-level plots include sequence fragment length\, edge\-linked interval to data view\, mismatch pileup\, and several splicing summaries.


.. conda:package:: bioconductor-ggbio

   |downloads_bioconductor-ggbio| |docker_bioconductor-ggbio|

   :versions:
      
      
      .. raw:: html

         <details><summary><span class="truncated-version-list"><code>1.50.0-0</code>,  <code>1.48.0-0</code>,  <code>1.46.0-0</code>,  <code>1.42.0-0</code>,  <code>1.40.0-0</code>,  <code>1.38.0-1</code>,  <code>1.38.0-0</code>,  <code>1.36.0-0</code>,  <code>1.34.0-0</code>,  </span></summary>
      

      ``1.50.0-0``,  ``1.48.0-0``,  ``1.46.0-0``,  ``1.42.0-0``,  ``1.40.0-0``,  ``1.38.0-1``,  ``1.38.0-0``,  ``1.36.0-0``,  ``1.34.0-0``,  ``1.32.0-1``,  ``1.30.0-0``,  ``1.28.5-0``,  ``1.26.0-0``,  ``1.24.1-0``,  ``1.22.0-0``,  ``1.20.2-0``,  ``1.18.5-0``,  ``1.18.1-0``,  ``1.18.0-0``

      
      .. raw:: html

         </details>
      

   
   :depends bioconductor-annotationdbi: ``>=1.64.0,<1.65.0``
   :depends bioconductor-annotationfilter: ``>=1.26.0,<1.27.0``
   :depends bioconductor-biobase: ``>=2.62.0,<2.63.0``
   :depends bioconductor-biocgenerics: ``>=0.48.0,<0.49.0``
   :depends bioconductor-biostrings: ``>=2.70.0,<2.71.0``
   :depends bioconductor-biovizbase: ``>=1.50.0,<1.51.0``
   :depends bioconductor-bsgenome: ``>=1.70.0,<1.71.0``
   :depends bioconductor-ensembldb: ``>=2.26.0,<2.27.0``
   :depends bioconductor-genomeinfodb: ``>=1.38.0,<1.39.0``
   :depends bioconductor-genomicalignments: ``>=1.38.0,<1.39.0``
   :depends bioconductor-genomicfeatures: ``>=1.54.0,<1.55.0``
   :depends bioconductor-genomicranges: ``>=1.54.0,<1.55.0``
   :depends bioconductor-iranges: ``>=2.36.0,<2.37.0``
   :depends bioconductor-organismdbi: ``>=1.44.0,<1.45.0``
   :depends bioconductor-rsamtools: ``>=2.18.0,<2.19.0``
   :depends bioconductor-rtracklayer: ``>=1.62.0,<1.63.0``
   :depends bioconductor-s4vectors: ``>=0.40.0,<0.41.0``
   :depends bioconductor-summarizedexperiment: ``>=1.32.0,<1.33.0``
   :depends bioconductor-variantannotation: ``>=1.48.0,<1.49.0``
   :depends r-base: ``>=4.3,<4.4.0a0``
   :depends r-ggally: 
   :depends r-ggplot2: ``>=1.0.0``
   :depends r-gridextra: 
   :depends r-gtable: 
   :depends r-hmisc: 
   :depends r-reshape2: 
   :depends r-rlang: 
   :depends r-scales: 
   :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-ggbio

   and update with::

      mamba update bioconductor-ggbio

  To create a new environment, run::

      mamba create --name myenvname bioconductor-ggbio

  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-ggbio:<tag>

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


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


.. raw:: html

    <script>
        var package = "bioconductor-ggbio";
        var versions = ["1.50.0","1.48.0","1.46.0","1.42.0","1.40.0"];
    </script>






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

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

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