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

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

bioconductor-modstrings
=======================

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

   Working with modified nucleotide sequences

   :homepage: https://bioconductor.org/packages/3.18/bioc/html/Modstrings.html
   :license: Artistic-2.0
   :recipe: /`bioconductor-modstrings <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-modstrings>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-modstrings/meta.yaml>`_

   Representing nucleotide modifications in a nucleotide sequence is usually done via special characters from a number of sources. This represents a challenge to work with in R and the Biostrings package. The Modstrings package implements this functionallity for RNA and DNA sequences containing modified nucleotides by translating the character internally in order to work with the infrastructure of the Biostrings package. For this the ModRNAString and ModDNAString classes and derivates and functions to construct and modify these objects despite the encoding issues are implemenented. In addition the conversion from sequences to list like location information \(and the reverse operation\) is implemented as well.


.. conda:package:: bioconductor-modstrings

   |downloads_bioconductor-modstrings| |docker_bioconductor-modstrings|

   :versions:
      
      
      .. raw:: html

         <details><summary><span class="truncated-version-list"><code>1.18.0-0</code>,  <code>1.16.0-0</code>,  <code>1.14.0-0</code>,  <code>1.10.0-0</code>,  <code>1.8.0-0</code>,  <code>1.6.0-1</code>,  <code>1.6.0-0</code>,  <code>1.4.0-0</code>,  <code>1.2.0-0</code>,  </span></summary>
      

      ``1.18.0-0``,  ``1.16.0-0``,  ``1.14.0-0``,  ``1.10.0-0``,  ``1.8.0-0``,  ``1.6.0-1``,  ``1.6.0-0``,  ``1.4.0-0``,  ``1.2.0-0``,  ``1.0.3-0``

      
      .. raw:: html

         </details>
      

   
   :depends bioconductor-biocgenerics: ``>=0.48.0,<0.49.0``
   :depends bioconductor-biostrings: ``>=2.70.0,<2.71.0``
   :depends bioconductor-genomicranges: ``>=1.54.0,<1.55.0``
   :depends bioconductor-iranges: ``>=2.36.0,<2.37.0``
   :depends bioconductor-s4vectors: ``>=0.40.0,<0.41.0``
   :depends bioconductor-xvector: ``>=0.42.0,<0.43.0``
   :depends r-base: ``>=4.3,<4.4.0a0``
   :depends r-crayon: 
   :depends r-stringi: 
   :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-modstrings

   and update with::

      mamba update bioconductor-modstrings

  To create a new environment, run::

      mamba create --name myenvname bioconductor-modstrings

  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-modstrings:<tag>

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


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


.. raw:: html

    <script>
        var package = "bioconductor-modstrings";
        var versions = ["1.18.0","1.16.0","1.14.0","1.10.0","1.8.0"];
    </script>






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

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

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