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

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

bioconductor-biocneighbors
==========================

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

   Nearest Neighbor Detection for Bioconductor Packages

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

   Implements exact and approximate methods for nearest neighbor detection\, in a framework that allows them to be easily switched within Bioconductor packages or workflows. Exact searches can be performed using the k\-means for k\-nearest neighbors algorithm or with vantage point trees. Approximate searches can be performed using the Annoy or HNSW libraries. Searching on either Euclidean or Manhattan distances is supported. Parallelization is achieved for all methods by using BiocParallel. Functions are also provided to search for all neighbors within a given distance.


.. conda:package:: bioconductor-biocneighbors

   |downloads_bioconductor-biocneighbors| |docker_bioconductor-biocneighbors|

   :versions:
      
      
      .. raw:: html

         <details><summary><span class="truncated-version-list"><code>1.20.0-0</code>,  <code>1.18.0-0</code>,  <code>1.16.0-1</code>,  <code>1.16.0-0</code>,  <code>1.12.0-2</code>,  <code>1.12.0-1</code>,  <code>1.12.0-0</code>,  <code>1.10.0-0</code>,  <code>1.8.2-0</code>,  </span></summary>
      

      ``1.20.0-0``,  ``1.18.0-0``,  ``1.16.0-1``,  ``1.16.0-0``,  ``1.12.0-2``,  ``1.12.0-1``,  ``1.12.0-0``,  ``1.10.0-0``,  ``1.8.2-0``,  ``1.8.0-0``,  ``1.6.0-0``,  ``1.4.0-0``,  ``1.2.0-1``,  ``1.0.0-0``

      
      .. raw:: html

         </details>
      

   
   :depends bioconductor-biocparallel: ``>=1.36.0,<1.37.0``
   :depends bioconductor-biocparallel: ``>=1.36.0,<1.37.0a0``
   :depends bioconductor-s4vectors: ``>=0.40.0,<0.41.0``
   :depends bioconductor-s4vectors: ``>=0.40.2,<0.41.0a0``
   :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-matrix: 
   :depends r-rcpp: 
   :depends r-rcpphnsw: 
   :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-biocneighbors

   and update with::

      mamba update bioconductor-biocneighbors

  To create a new environment, run::

      mamba create --name myenvname bioconductor-biocneighbors

  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-biocneighbors:<tag>

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


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


.. raw:: html

    <script>
        var package = "bioconductor-biocneighbors";
        var versions = ["1.20.0","1.18.0","1.16.0","1.16.0","1.12.0"];
    </script>






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

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

Link to this page
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.. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat
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