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

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

bioconductor-bhc
================

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

   Bayesian Hierarchical Clustering

   :homepage: https://bioconductor.org/packages/3.18/bioc/html/BHC.html
   :license: GPL-3
   :recipe: /`bioconductor-bhc <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-bhc>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-bhc/meta.yaml>`_
   :links: biotools: :biotools:`bhc`, doi: :doi:`10.1186/1471-2105-10-242`

   The method performs bottom\-up hierarchical clustering\, using a Dirichlet Process \(infinite mixture\) to model uncertainty in the data and Bayesian model selection to decide at each step which clusters to merge.  This avoids several limitations of traditional methods\, for example how many clusters there should be and how to choose a principled distance metric.  This implementation accepts multinomial \(i.e. discrete\, with 2\+ categories\) or time\-series data. This version also includes a randomised algorithm which is more efficient for larger data sets.


.. conda:package:: bioconductor-bhc

   |downloads_bioconductor-bhc| |docker_bioconductor-bhc|

   :versions:
      
      
      .. raw:: html

         <details><summary><span class="truncated-version-list"><code>1.54.0-0</code>,  <code>1.52.0-0</code>,  <code>1.50.0-2</code>,  <code>1.50.0-1</code>,  <code>1.50.0-0</code>,  <code>1.46.0-2</code>,  <code>1.46.0-1</code>,  <code>1.46.0-0</code>,  <code>1.44.0-0</code>,  </span></summary>
      

      ``1.54.0-0``,  ``1.52.0-0``,  ``1.50.0-2``,  ``1.50.0-1``,  ``1.50.0-0``,  ``1.46.0-2``,  ``1.46.0-1``,  ``1.46.0-0``,  ``1.44.0-0``,  ``1.42.0-1``,  ``1.42.0-0``,  ``1.40.0-0``,  ``1.38.0-0``,  ``1.36.0-1``,  ``1.36.0-0``,  ``1.34.0-0``,  ``1.32.0-0``,  ``1.30.0-0``,  ``1.28.0-0``

      
      .. raw:: html

         </details>
      

   
   :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``
   :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-bhc

   and update with::

      mamba update bioconductor-bhc

  To create a new environment, run::

      mamba create --name myenvname bioconductor-bhc

  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-bhc:<tag>

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


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


.. raw:: html

    <script>
        var package = "bioconductor-bhc";
        var versions = ["1.54.0","1.52.0","1.50.0","1.50.0","1.50.0"];
    </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-bhc/README.html