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

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

bioconductor-rbec
=================

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

   Rbec\: a tool for analysis of amplicon sequencing data from synthetic microbial communities

   :homepage: https://bioconductor.org/packages/3.18/bioc/html/Rbec.html
   :license: LGPL-3
   :recipe: /`bioconductor-rbec <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-rbec>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-rbec/meta.yaml>`_

   Rbec is a adapted version of DADA2 for analyzing amplicon sequencing data from synthetic communities \(SynComs\)\, where the reference sequences for each strain exists. Rbec can not only accurately profile the microbial compositions in SynComs\, but also predict the contaminants in SynCom samples.


.. conda:package:: bioconductor-rbec

   |downloads_bioconductor-rbec| |docker_bioconductor-rbec|

   :versions:
      
      

      ``1.10.0-0``,  ``1.8.0-0``,  ``1.6.0-1``,  ``1.6.0-0``,  ``1.2.0-2``,  ``1.2.0-1``,  ``1.2.0-0``,  ``1.0.0-0``

      

   
   :depends bioconductor-dada2: ``>=1.30.0,<1.31.0``
   :depends bioconductor-dada2: ``>=1.30.0,<1.31.0a0``
   :depends libblas: ``>=3.9.0,<4.0a0``
   :depends libgcc-ng: ``>=12``
   :depends liblapack: ``>=3.9.0,<4.0a0``
   :depends libstdcxx-ng: ``>=12``
   :depends r-base: ``>=4.3,<4.4.0a0``
   :depends r-doparallel: 
   :depends r-foreach: 
   :depends r-ggplot2: 
   :depends r-rcpp: ``>=1.0.6``
   :depends r-readr: 
   :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-rbec

   and update with::

      mamba update bioconductor-rbec

  To create a new environment, run::

      mamba create --name myenvname bioconductor-rbec

  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-rbec:<tag>

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


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


.. raw:: html

    <script>
        var package = "bioconductor-rbec";
        var versions = ["1.10.0","1.8.0","1.6.0","1.6.0","1.2.0"];
    </script>






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

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

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

Render an |install-with-bioconda| badge with the following MarkDown::

   [![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-rbec/README.html)

.. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat
   :target: http://bioconda.github.io/recipes/bioconductor-rbec/README.html