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

.. title:: Package Recipe 'eastr-cpp'
.. highlight: bash

eastr-cpp
=========

.. conda:recipe:: eastr-cpp
   :replaces_section_title:
   :noindex:

   Detect and remove spuriously spliced alignments from RNA\-seq data

   :homepage: https://github.com/ishinder/eastr-cpp
   :documentation: https://github.com/ishinder/eastr-cpp#readme
   
   :license: MIT / MIT
   :recipe: /`eastr-cpp <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/eastr-cpp>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/eastr-cpp/meta.yaml>`_
   :links: doi: :doi:`10.1038/s41467-023-43017-4`, biotools: :biotools:`eastr`

   EASTR \(Emending Alignments of Spliced Transcript Reads\) identifies and
   eliminates systematic alignment errors in multi\-exon genes from RNA\-seq
   data. This C\+\+ implementation provides \~10x faster performance than the
   original Python version with identical results.



.. conda:package:: eastr-cpp

   |downloads_eastr-cpp| |docker_eastr-cpp|

   :versions:
      
      

      ``2.0.2-0``

      

   
   :depends bowtie2: ``>=2.5.2``
   :depends htslib: ``>=1.23,<1.24.0a0``
   :depends libgcc: ``>=13``
   :depends libstdcxx: ``>=13``
   :depends libzlib: ``>=1.3.1,<2.0a0``
   :requirements:

   :additional platforms:
      

   .. 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 eastr-cpp

   and update with::

      mamba update eastr-cpp

  To create a new environment, run::

      mamba create --name myenvname eastr-cpp

  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/eastr-cpp:<tag>

   (see `eastr-cpp/tags`_ for valid values for ``<tag>``)


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


.. raw:: html

    <script>
        var package = "eastr-cpp";
        var versions = ["2.0.2"];
    </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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