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

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

bioconductor-dittoseq
=====================

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

   User Friendly Single\-Cell and Bulk RNA Sequencing Visualization

   :homepage: https://bioconductor.org/packages/3.14/bioc/html/dittoSeq.html
   :license: MIT + file LICENSE
   :recipe: /`bioconductor-dittoseq <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-dittoseq>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-dittoseq/meta.yaml>`_

   A universal\, user friendly\, single\-cell and bulk RNA sequencing visualization toolkit that allows highly customizable creation of color blindness friendly\, publication\-quality figures. dittoSeq accepts both SingleCellExperiment \(SCE\) and Seurat objects\, as well as the import and usage\, via conversion to an SCE\, of SummarizedExperiment or DGEList bulk data. Visualizations include dimensionality reduction plots\, heatmaps\, scatterplots\, percent composition or expression across groups\, and more. Customizations range from size and title adjustments to automatic generation of annotations for heatmaps\, overlay of trajectory analysis onto any dimensionality reduciton plot\, hidden data overlay upon cursor hovering via ggplotly conversion\, and many more. All with simple\, discrete inputs. Color blindness friendliness is powered by legend adjustments \(enlarged keys\)\, and by allowing the use of shapes or letter\-overlay in addition to the carefully selected dittoColors\(\).


.. conda:package:: bioconductor-dittoseq

   |downloads_bioconductor-dittoseq| |docker_bioconductor-dittoseq|

   :versions:
      
      

      ``1.6.0-0``,  ``1.4.1-0``,  ``1.2.5-0``,  ``1.2.0-0``,  ``1.0.1-0``

      

   
   :depends bioconductor-s4vectors: ``>=0.32.0,<0.33.0``
   :depends bioconductor-singlecellexperiment: ``>=1.16.0,<1.17.0``
   :depends bioconductor-summarizedexperiment: ``>=1.24.0,<1.25.0``
   :depends r-base: ``>=4.1,<4.2.0a0``
   :depends r-colorspace: ``>=1.4``
   :depends r-cowplot: 
   :depends r-ggplot2: 
   :depends r-ggrepel: 
   :depends r-ggridges: 
   :depends r-gridextra: 
   :depends r-pheatmap: 
   :depends r-reshape2: 
   :requirements:

   .. rubric:: Installation

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

      conda install bioconductor-dittoseq

   and update with::

      conda update bioconductor-dittoseq

   or use the docker container::

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

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


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


.. raw:: html

    <script>
        var package = "bioconductor-dittoseq";
        var versions = ["1.6.0","1.4.1","1.2.5","1.2.0","1.0.1"];
    </script>






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

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

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.. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat
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