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

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

bioconductor-rificomparative
============================

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

   \'rifiComparative\' compares the output of rifi from two different conditions.

   :homepage: https://bioconductor.org/packages/3.18/bioc/html/rifiComparative.html
   :license: GPL-3 + file LICENSE
   :recipe: /`bioconductor-rificomparative <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-rificomparative>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-rificomparative/meta.yaml>`_

   \'rifiComparative\' is a continuation of rifi package. It compares two conditions output of rifi using half\-life and mRNA at time 0 segments. As an input for the segmentation\, the difference between half\-life of both condtions and log2FC of the mRNA at time 0 are used. The package provides segmentation\, statistics\, summary table\, fragments visualization and some additional useful plots for further anaylsis.


.. conda:package:: bioconductor-rificomparative

   |downloads_bioconductor-rificomparative| |docker_bioconductor-rificomparative|

   :versions:
      
      

      ``1.2.0-0``,  ``1.0.1-0``

      

   
   :depends bioconductor-dta: ``>=2.48.0,<2.49.0``
   :depends bioconductor-rtracklayer: ``>=1.62.0,<1.63.0``
   :depends bioconductor-s4vectors: ``>=0.40.0,<0.41.0``
   :depends bioconductor-summarizedexperiment: ``>=1.32.0,<1.33.0``
   :depends r-base: ``>=4.3,<4.4.0a0``
   :depends r-cowplot: 
   :depends r-devtools: 
   :depends r-domc: 
   :depends r-dplyr: 
   :depends r-egg: 
   :depends r-foreach: 
   :depends r-ggplot2: 
   :depends r-ggrepel: 
   :depends r-lsd: 
   :depends r-nnet: 
   :depends r-reshape2: 
   :depends r-rlang: 
   :depends r-scales: 
   :depends r-stringr: 
   :depends r-tibble: 
   :depends r-writexl: 
   :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-rificomparative

   and update with::

      mamba update bioconductor-rificomparative

  To create a new environment, run::

      mamba create --name myenvname bioconductor-rificomparative

  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-rificomparative:<tag>

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


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


.. raw:: html

    <script>
        var package = "bioconductor-rificomparative";
        var versions = ["1.2.0","1.0.1"];
    </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
   :target: http://bioconda.github.io/recipes/bioconductor-rificomparative/README.html