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

.. title:: Package Recipe 'bioconductor-bloodgen3module'
.. highlight: bash

bioconductor-bloodgen3module
============================

.. conda:recipe:: bioconductor-bloodgen3module
   :replaces_section_title:
   :noindex:

   This R package for performing module repertoire analyses and generating fingerprint representations

   :homepage: https://bioconductor.org/packages/3.18/bioc/html/BloodGen3Module.html
   :license: GPL-2
   :recipe: /`bioconductor-bloodgen3module <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-bloodgen3module>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-bloodgen3module/meta.yaml>`_

   The BloodGen3Module package provides functions for R user performing module repertoire analyses and generating fingerprint representations. Functions can perform group comparison or individual sample analysis and visualization by fingerprint grid plot or fingerprint heatmap. Module repertoire analyses typically involve determining the percentage of the constitutive genes for each module that are significantly increased or decreased. As we describe in details\;https\:\/\/www.biorxiv.org\/content\/10.1101\/525709v2 and https\:\/\/pubmed.ncbi.nlm.nih.gov\/33624743\/\, the results of module repertoire analyses can be represented in a fingerprint format\, where red and blue spots indicate increases or decreases in module activity. These spots are subsequently represented either on a grid\, with each position being assigned to a given module\, or in a heatmap where the samples are arranged in columns and the modules in rows.


.. conda:package:: bioconductor-bloodgen3module

   |downloads_bioconductor-bloodgen3module| |docker_bioconductor-bloodgen3module|

   :versions:
      
      

      ``1.10.0-0``,  ``1.8.0-0``,  ``1.6.0-0``,  ``1.2.0-0``,  ``1.0.0-0``

      

   
   :depends bioconductor-complexheatmap: ``>=2.18.0,<2.19.0``
   :depends bioconductor-experimenthub: ``>=2.10.0,<2.11.0``
   :depends bioconductor-limma: ``>=3.58.0,<3.59.0``
   :depends bioconductor-preprocesscore: ``>=1.64.0,<1.65.0``
   :depends bioconductor-summarizedexperiment: ``>=1.32.0,<1.33.0``
   :depends r-base: ``>=4.3,<4.4.0a0``
   :depends r-circlize: 
   :depends r-ggplot2: 
   :depends r-gtools: 
   :depends r-matrixstats: 
   :depends r-randomcolor: 
   :depends r-reshape2: 
   :depends r-testthat: 
   :depends r-v8: 
   :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-bloodgen3module

   and update with::

      mamba update bioconductor-bloodgen3module

  To create a new environment, run::

      mamba create --name myenvname bioconductor-bloodgen3module

  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-bloodgen3module:<tag>

   (see `bioconductor-bloodgen3module/tags`_ for valid values for ``<tag>``)


.. |downloads_bioconductor-bloodgen3module| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-bloodgen3module.svg?style=flat
   :target: https://anaconda.org/bioconda/bioconductor-bloodgen3module
   :alt:   (downloads)
.. |docker_bioconductor-bloodgen3module| image:: https://quay.io/repository/biocontainers/bioconductor-bloodgen3module/status
   :target: https://quay.io/repository/biocontainers/bioconductor-bloodgen3module
.. _`bioconductor-bloodgen3module/tags`: https://quay.io/repository/biocontainers/bioconductor-bloodgen3module?tab=tags


.. raw:: html

    <script>
        var package = "bioconductor-bloodgen3module";
        var versions = ["1.10.0","1.8.0","1.6.0","1.2.0","1.0.0"];
    </script>






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

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

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