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

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

bioconductor-msexperiment
=========================

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

   Infrastructure for Mass Spectrometry Experiments

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

   Infrastructure to store and manage all aspects related to a complete proteomics or metabolomics mass spectrometry \(MS\) experiment. The MsExperiment package provides light\-weight and flexible containers for MS experiments building on the new MS infrastructure provided by the Spectra\, QFeatures and related packages. Along with raw data representations\, links to original data files and sample annotations\, additional metadata or annotations can also be stored within the MsExperiment container. To guarantee maximum flexibility only minimal constraints are put on the type and content of the data within the containers.


.. conda:package:: bioconductor-msexperiment

   |downloads_bioconductor-msexperiment| |docker_bioconductor-msexperiment|

   :versions:
      
      

      ``1.4.0-0``,  ``1.2.0-0``,  ``1.0.0-0``

      

   
   :depends bioconductor-iranges: ``>=2.36.0,<2.37.0``
   :depends bioconductor-protgenerics: ``>=1.34.0,<1.35.0``
   :depends bioconductor-qfeatures: ``>=1.12.0,<1.13.0``
   :depends bioconductor-s4vectors: ``>=0.40.0,<0.41.0``
   :depends bioconductor-spectra: ``>=1.12.0,<1.13.0``
   :depends bioconductor-summarizedexperiment: ``>=1.32.0,<1.33.0``
   :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-msexperiment

   and update with::

      mamba update bioconductor-msexperiment

  To create a new environment, run::

      mamba create --name myenvname bioconductor-msexperiment

  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-msexperiment:<tag>

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


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


.. raw:: html

    <script>
        var package = "bioconductor-msexperiment";
        var versions = ["1.4.0","1.2.0","1.0.0"];
    </script>






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

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

Link to this page
-----------------

Render an |install-with-bioconda| badge with the following MarkDown::

   [![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-msexperiment/README.html)

.. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat
   :target: http://bioconda.github.io/recipes/bioconductor-msexperiment/README.html