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

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

bioconductor-ctggem
===================

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

   Generating Tree Hierarchy Visualizations from Gene Expression Data

   :homepage: https://bioconductor.org/packages/3.14/bioc/html/ctgGEM.html
   :license: GPL(>=2)
   :recipe: /`bioconductor-ctggem <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-ctggem>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-ctggem/meta.yaml>`_

   Cell Tree Generator for Gene Expression Matrices \(ctgGEM\) streamlines the building of cell\-state hierarchies from single\-cell gene expression data across multiple existing tools for improved comparability and reproducibility. It supports pseudotemporal ordering algorithms and visualization tools from monocle\, cellTree\, TSCAN\, sincell\, and destiny\, and provides a unified output format for integration with downstream data analysis workflows and Cytoscape.


.. conda:package:: bioconductor-ctggem

   |downloads_bioconductor-ctggem| |docker_bioconductor-ctggem|

   :versions:
      
      

      ``1.6.0-0``,  ``1.2.0-1``,  ``1.2.0-0``,  ``0.99.3-0``

      

   
   :depends bioconductor-biobase: ``>=2.54.0,<2.55.0``
   :depends bioconductor-biocgenerics: ``>=0.40.0,<0.41.0``
   :depends bioconductor-monocle: ``>=2.22.0,<2.23.0``
   :depends bioconductor-sincell: ``>=1.26.0,<1.27.0``
   :depends bioconductor-summarizedexperiment: ``>=1.24.0,<1.25.0``
   :depends bioconductor-tscan: ``>=1.32.0,<1.33.0``
   :depends r-base: ``>=4.1,<4.2.0a0``
   :depends r-igraph: 
   :depends r-matrix: 
   :requirements:

   .. rubric:: Installation

   With an activated Bioconda channel (see :ref:`set-up-channels`), install with::

      conda install bioconductor-ctggem

   and update with::

      conda update bioconductor-ctggem

   or use the docker container::

      docker pull quay.io/biocontainers/bioconductor-ctggem:<tag>

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


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


.. raw:: html

    <script>
        var package = "bioconductor-ctggem";
        var versions = ["1.6.0","1.2.0","1.2.0","0.99.3"];
    </script>






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