:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'mirdeep2' .. highlight: bash mirdeep2 ======== .. conda:recipe:: mirdeep2 :replaces_section_title: :noindex: A completely overhauled tool which discovers microRNA genes by analyzing sequenced RNAs :homepage: https://www.mdc-berlin.de/8551903/en/research/research_teams/systems_biology_of_gene_regulatory_elements/projects/miRDeep :license: academic :recipe: /`mirdeep2 `_/`meta.yaml `_ .. conda:package:: mirdeep2 |downloads_mirdeep2| |docker_mirdeep2| :versions: .. raw:: html
2.0.1.3-12.0.1.3-02.0.1.2-02.0.0.8-52.0.0.8-42.0.0.8-32.0.0.8-22.0.0.8-12.0.0.8-0 ``2.0.1.3-1``,  ``2.0.1.3-0``,  ``2.0.1.2-0``,  ``2.0.0.8-5``,  ``2.0.0.8-4``,  ``2.0.0.8-3``,  ``2.0.0.8-2``,  ``2.0.0.8-1``,  ``2.0.0.8-0``,  ``2.0.0.7-8``,  ``2.0.0.7-7``,  ``2.0.0.7-6``,  ``2.0.0.7-5``,  ``2.0.0.7-4``,  ``2.0.0.7-3``,  ``2.0.0.7-2``,  ``2.0.0.7-1`` .. raw:: html
:depends bowtie: :depends perl: :depends perl-compress-raw-zlib: :depends perl-font-ttf: :depends perl-lwp-simple: :depends perl-pdf-api2: :depends randfold: :depends viennarna: :requirements: .. rubric:: Installation You need a conda-compatible package manager (currently either `micromamba `_, `mamba `_, or `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 `_ 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 mirdeep2 and update with:: mamba update mirdeep2 To create a new environment, run:: mamba create --name myenvname mirdeep2 with ``myenvname`` being a reasonable name for the environment (see e.g. the `mamba docs `_ for details and further options). Alternatively, use the docker container:: docker pull quay.io/biocontainers/mirdeep2: (see `mirdeep2/tags`_ for valid values for ````) .. |downloads_mirdeep2| image:: https://img.shields.io/conda/dn/bioconda/mirdeep2.svg?style=flat :target: https://anaconda.org/bioconda/mirdeep2 :alt: (downloads) .. |docker_mirdeep2| image:: https://quay.io/repository/biocontainers/mirdeep2/status :target: https://quay.io/repository/biocontainers/mirdeep2 .. _`mirdeep2/tags`: https://quay.io/repository/biocontainers/mirdeep2?tab=tags .. raw:: html Download stats ----------------- .. raw:: html :file: ../../templates/package_dashboard.html Link to this page ----------------- Render an |install-with-bioconda| badge with the following MarkDown:: [![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/mirdeep2/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/mirdeep2/README.html