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

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

bioconductor-flowspecs
======================

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

   Tools for processing of high\-dimensional cytometry data

   :homepage: https://bioconductor.org/packages/3.18/bioc/html/flowSpecs.html
   :license: MIT + file LICENSE
   :recipe: /`bioconductor-flowspecs <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-flowspecs>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-flowspecs/meta.yaml>`_

   This package is intended to fill the role of conventional cytometry pre\-processing software\, for spectral decomposition\, transformation\, visualization and cleanup\, and to aid further downstream analyses\, such as with DepecheR\, by enabling transformation of flowFrames and flowSets to dataframes. Functions for flowCore\-compliant automatic 1D\-gating\/filtering are in the pipe line. The package name has been chosen both as it will deal with spectral cytometry and as it will hopefully give the user a nice pair of spectacles through which to view their data.


.. conda:package:: bioconductor-flowspecs

   |downloads_bioconductor-flowspecs| |docker_bioconductor-flowspecs|

   :versions:
      
      

      ``1.16.0-0``,  ``1.14.0-0``,  ``1.12.0-0``,  ``1.8.0-0``,  ``1.6.0-0``,  ``1.4.0-1``,  ``1.4.0-0``,  ``1.2.0-0``,  ``1.0.0-0``

      

   
   :depends bioconductor-biobase: ``>=2.62.0,<2.63.0``
   :depends bioconductor-biocgenerics: ``>=0.48.0,<0.49.0``
   :depends bioconductor-biocparallel: ``>=1.36.0,<1.37.0``
   :depends bioconductor-flowcore: ``>=2.14.0,<2.15.0``
   :depends r-base: ``>=4.3,<4.4.0a0``
   :depends r-ggplot2: ``>=3.1.0``
   :depends r-reshape2: ``>=1.4.3``
   :depends r-zoo: ``>=1.8.6``
   :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-flowspecs

   and update with::

      mamba update bioconductor-flowspecs

  To create a new environment, run::

      mamba create --name myenvname bioconductor-flowspecs

  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-flowspecs:<tag>

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


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


.. raw:: html

    <script>
        var package = "bioconductor-flowspecs";
        var versions = ["1.16.0","1.14.0","1.12.0","1.8.0","1.6.0"];
    </script>






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

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

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

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

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