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

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

bioconductor-multicrispr
========================

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

   Multi\-locus multi\-purpose Crispr\/Cas design

   :homepage: https://bioconductor.org/packages/3.20/bioc/html/multicrispr.html
   :license: GPL-2
   :recipe: /`bioconductor-multicrispr <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-multicrispr>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-multicrispr/meta.yaml>`_

   This package is for designing Crispr\/Cas9 and Prime Editing experiments. It contains functions to \(1\) define and transform genomic targets\, \(2\) find spacers \(4\) count offtarget \(mis\)matches\, and \(5\) compute Doench2016\/2014 targeting efficiency. Care has been taken for multicrispr to scale well towards large target sets\, enabling the design of large Crispr\/Cas9 libraries.


.. conda:package:: bioconductor-multicrispr

   |downloads_bioconductor-multicrispr| |docker_bioconductor-multicrispr|

   :versions:
      
      

      ``1.16.0-0``,  ``1.12.3-0``,  ``1.10.1-0``,  ``1.8.0-0``,  ``1.4.0-0``,  ``1.2.0-0``,  ``1.0.0-2``,  ``1.0.0-1``

      

   
   :depends bioconductor-biocgenerics: ``>=0.52.0,<0.53.0``
   :depends bioconductor-biostrings: ``>=2.74.0,<2.75.0``
   :depends bioconductor-bsgenome: ``>=1.74.0,<1.75.0``
   :depends bioconductor-crisprseek: ``>=1.46.0,<1.47.0``
   :depends bioconductor-genomeinfodb: ``>=1.42.0,<1.43.0``
   :depends bioconductor-genomicfeatures: ``>=1.58.0,<1.59.0``
   :depends bioconductor-genomicranges: ``>=1.58.0,<1.59.0``
   :depends bioconductor-karyoploter: ``>=1.32.0,<1.33.0``
   :depends bioconductor-plyranges: ``>=1.26.0,<1.27.0``
   :depends bioconductor-rbowtie: ``>=1.46.0,<1.47.0``
   :depends bioconductor-rtracklayer: ``>=1.66.0,<1.67.0``
   :depends r-base: ``>=4.4,<4.5.0a0``
   :depends r-data.table: 
   :depends r-ggplot2: 
   :depends r-magrittr: 
   :depends r-reticulate: 
   :depends r-stringi: 
   :depends r-tidyr: 
   :depends r-tidyselect: 
   :requirements:

   :additional platforms:
      

   .. 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-multicrispr

   and update with::

      mamba update bioconductor-multicrispr

  To create a new environment, run::

      mamba create --name myenvname bioconductor-multicrispr

  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-multicrispr:<tag>

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


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


.. raw:: html

    <script>
        var package = "bioconductor-multicrispr";
        var versions = ["1.16.0","1.12.3","1.10.1","1.8.0","1.4.0"];
    </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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