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

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

bioconductor-scran
==================

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

   Methods for Single\-Cell RNA\-Seq Data Analysis

   :homepage: https://bioconductor.org/packages/3.11/bioc/html/scran.html
   :license: GPL-3
   :recipe: /`bioconductor-scran <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-scran>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-scran/meta.yaml>`_
   :links: biotools: :biotools:`scran`

   Implements functions for low\-level analyses of single\-cell RNA\-seq data. Methods are provided for normalization of cell\-specific biases\, assignment of cell cycle phase\, detection of highly variable and significantly correlated genes\, identification of marker genes\, and other common tasks in routine single\-cell analysis workflows.


.. conda:package:: bioconductor-scran

   |downloads_bioconductor-scran| |docker_bioconductor-scran|

   :versions:
      
      

      ``1.16.0-0``,  ``1.14.1-0``,  ``1.14.0-0``,  ``1.12.1-0``,  ``1.10.1-0``,  ``1.8.4-0``,  ``1.6.2-0``,  ``1.4.5-0``

      

   
   :depends bioconductor-beachmat: ``>=2.4.0,<2.5.0``
   :depends bioconductor-biocgenerics: ``>=0.34.0,<0.35.0``
   :depends bioconductor-biocneighbors: ``>=1.6.0,<1.7.0``
   :depends bioconductor-biocparallel: ``>=1.22.0,<1.23.0``
   :depends bioconductor-biocsingular: ``>=1.4.0,<1.5.0``
   :depends bioconductor-delayedarray: ``>=0.14.0,<0.15.0``
   :depends bioconductor-delayedmatrixstats: ``>=1.10.0,<1.11.0``
   :depends bioconductor-edger: ``>=3.30.0,<3.31.0``
   :depends bioconductor-iranges: ``>=2.22.0,<2.23.0``
   :depends bioconductor-limma: ``>=3.44.0,<3.45.0``
   :depends bioconductor-s4vectors: ``>=0.26.0,<0.27.0``
   :depends bioconductor-scater: ``>=1.16.0,<1.17.0``
   :depends bioconductor-singlecellexperiment: ``>=1.10.0,<1.11.0``
   :depends bioconductor-summarizedexperiment: ``>=1.18.0,<1.19.0``
   :depends libblas: ``>=3.8.0,<4.0a0``
   :depends libgcc-ng: ``>=7.3.0``
   :depends liblapack: ``>=3.8.0,<3.9.0a0``
   :depends libstdcxx-ng: ``>=7.3.0``
   :depends r-base: ``>=4.0,<4.1.0a0``
   :depends r-bh: 
   :depends r-dqrng: 
   :depends r-igraph: 
   :depends r-matrix: 
   :depends r-rcpp: 
   :depends r-statmod: 
   :requirements:

   .. rubric:: Installation

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

      conda install bioconductor-scran

   and update with::

      conda update bioconductor-scran

   or use the docker container::

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

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


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







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