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

.. title:: Package Recipe 'r-jackstraw'
.. highlight: bash

r-jackstraw
===========

.. conda:recipe:: r-jackstraw
   :replaces_section_title:
   :noindex:

   Test for association between the observed data and their systematic patterns of variations. Systematic patterns may be captured by latent variables using principal component analysis \(PCA\)\, factor analysis \(FA\)\, and related methods. The jackstraw enables statistical testing for association between observed variables and latent variables\, as captured by PCs or other estimates. Similarly\, unsupervised clustering\, such as K\-means clustering\, partition around medoids \(PAM\)\, and others\, finds subpopulations among the observed variables. The jackstraw estimates statistical significance of cluster membership\, including unsupervised evaluation of cell identities in single cell RNA\-seq. P\-values and posterior probabilities allows one to rigorously evaluate the strength of cluster membership assignments.

   :homepage: https://CRAN.R-project.org/package=jackstraw
   :license: GPL2 / GPL-2.0-only
   :recipe: /`r-jackstraw <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/r-jackstraw>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/r-jackstraw/meta.yaml>`_

   


.. conda:package:: r-jackstraw

   |downloads_r-jackstraw| |docker_r-jackstraw|

   :versions:
      
      
      .. raw:: html

         <details><summary><span class="truncated-version-list"><code>1.3.9-0</code>,  <code>1.3.8-1</code>,  <code>1.3.8-0</code>,  <code>1.3.1-1</code>,  <code>1.3.1-0</code>,  <code>1.3-6</code>,  <code>1.3-5</code>,  <code>1.3-4</code>,  <code>1.3-3</code>,  </span></summary>
      

      ``1.3.9-0``,  ``1.3.8-1``,  ``1.3.8-0``,  ``1.3.1-1``,  ``1.3.1-0``,  ``1.3-6``,  ``1.3-5``,  ``1.3-4``,  ``1.3-3``,  ``1.3-2``,  ``1.3-1``,  ``1.3-0``

      
      .. raw:: html

         </details>
      

   
   :depends bioconductor-qvalue: 
   :depends r-base: ``>=4.3,<4.4.0a0``
   :depends r-cluster: 
   :depends r-clusterr: 
   :depends r-corpcor: 
   :depends r-irlba: 
   :depends r-rsvd: 
   :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 r-jackstraw

   and update with::

      mamba update r-jackstraw

  To create a new environment, run::

      mamba create --name myenvname r-jackstraw

  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/r-jackstraw:<tag>

   (see `r-jackstraw/tags`_ for valid values for ``<tag>``)


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


.. raw:: html

    <script>
        var package = "r-jackstraw";
        var versions = ["1.3.9","1.3.8","1.3.8","1.3.1","1.3.1"];
    </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
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