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

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

r-locuszoomr
============

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

   Publication\-ready regional gene locus plots similar to those produced by the web interface \'LocusZoom\' \<https\:\/\/my.locuszoom.org\>\, but running locally in R. Genetic or genomic data with gene annotation tracks are plotted via R base graphics\, \'ggplot2\' or \'plotly\'\, allowing flexibility and easy customisation including laying out multiple locus plots on the same page. It uses the \'LDlink\' API \<https\:\/\/ldlink.nih.gov\/\?tab\=apiaccess\> to query linkage disequilibrium data from the 1000 Genomes Project and can overlay this on plots.

   :homepage: https://github.com/myles-lewis/locuszoomr
   :license: GPL3 / GPL-3
   :recipe: /`r-locuszoomr <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/r-locuszoomr>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/r-locuszoomr/meta.yaml>`_

   


.. conda:package:: r-locuszoomr

   |downloads_r-locuszoomr| |docker_r-locuszoomr|

   :versions:
      
      

      ``0.3.8-0``,  ``0.3.7-0``,  ``0.3.6-0``,  ``0.3.5-1``,  ``0.3.5-0``

      

   
   :depends bioconductor-annotationfilter: 
   :depends bioconductor-biocgenerics: 
   :depends bioconductor-ensembldb: 
   :depends bioconductor-genomeinfodb: 
   :depends bioconductor-genomicranges: 
   :depends bioconductor-iranges: 
   :depends bioconductor-rtracklayer: 
   :depends r-base: ``>=4.4,<4.5.0a0``
   :depends r-cowplot: 
   :depends r-dplyr: 
   :depends r-gggrid: 
   :depends r-ggplot2: 
   :depends r-ggrepel: 
   :depends r-ldlinkr: 
   :depends r-memoise: 
   :depends r-plotly: 
   :depends r-rlang: 
   :depends r-zoo: 
   :requirements:

   :additional platforms:
      

   .. 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-locuszoomr

   and update with::

      mamba update r-locuszoomr

  To create a new environment, run::

      mamba create --name myenvname r-locuszoomr

  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-locuszoomr:<tag>

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


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


.. raw:: html

    <script>
        var package = "r-locuszoomr";
        var versions = ["0.3.8","0.3.7","0.3.6","0.3.5","0.3.5"];
    </script>






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

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