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

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

bioconductor-customprodb
========================

.. conda:recipe:: customprodb
   :replaces_section_title:
   :noindex:

   Generate customized protein sequence database from RNA\-Seq data for proteomics search

   :homepage: http://bioconductor.org/packages/release/bioc/html/customProDB.html
   :license: Artistic-2.0
   :recipe: /`customprodb <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/customprodb>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/customprodb/meta.yaml>`_

   


.. conda:package:: bioconductor-customprodb

   |downloads_bioconductor-customprodb| |docker_bioconductor-customprodb|

   :versions:
      
      
      .. raw:: html

         <details><summary><span class="truncated-version-list"><code>1.41.0-0</code>,  <code>1.40.0-0</code>,  <code>1.38.0-0</code>,  <code>1.34.0-0</code>,  <code>1.32.0-0</code>,  <code>1.30.0-1</code>,  <code>1.30.0-0</code>,  <code>1.28.0-0</code>,  <code>1.26.0-0</code>,  </span></summary>
      

      ``1.41.0-0``,  ``1.40.0-0``,  ``1.38.0-0``,  ``1.34.0-0``,  ``1.32.0-0``,  ``1.30.0-1``,  ``1.30.0-0``,  ``1.28.0-0``,  ``1.26.0-0``,  ``1.24.0-1``,  ``1.22.0-0``,  ``1.14.0-0``

      
      .. raw:: html

         </details>
      

   
   :depends bioconductor-annotationdbi: ``>=1.64.0,<1.65.0``
   :depends bioconductor-biomart: ``>=2.58.0,<2.59.0``
   :depends bioconductor-biostrings: ``>=2.70.0,<2.71.0``
   :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-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-variantannotation: ``>=1.48.0,<1.49.0``
   :depends r-ahocorasicktrie: 
   :depends r-base: ``>=4.3,<4.4.0a0``
   :depends r-dbi: 
   :depends r-plyr: 
   :depends r-rcurl: 
   :depends r-rsqlite: 
   :depends r-stringr: 
   :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-customprodb

   and update with::

      mamba update bioconductor-customprodb

  To create a new environment, run::

      mamba create --name myenvname bioconductor-customprodb

  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-customprodb:<tag>

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


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


.. raw:: html

    <script>
        var package = "bioconductor-customprodb";
        var versions = ["1.41.0","1.40.0","1.38.0","1.34.0","1.32.0"];
    </script>






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

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

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