:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'vardict-java' .. highlight: bash vardict-java ============ .. conda:recipe:: vardict-java :replaces_section_title: :noindex: Java port of the VarDict variant discovery program :homepage: https://github.com/AstraZeneca-NGS/VarDictJava :license: MIT :recipe: /`vardict-java `_/`meta.yaml `_ .. conda:package:: vardict-java |downloads_vardict-java| |docker_vardict-java| :versions: .. raw:: html
1.8.3-01.8.2-31.8.2-21.8.2-11.8.2-01.8.1-01.8.0-01.7.0-01.6.0-0 ``1.8.3-0``,  ``1.8.2-3``,  ``1.8.2-2``,  ``1.8.2-1``,  ``1.8.2-0``,  ``1.8.1-0``,  ``1.8.0-0``,  ``1.7.0-0``,  ``1.6.0-0``,  ``1.5.8-1``,  ``1.5.8-0``,  ``1.5.7-0``,  ``1.5.6-0``,  ``1.5.5-0``,  ``1.5.4-0``,  ``1.5.3-0``,  ``1.5.2-0``,  ``1.5.1-1``,  ``1.5.1-0``,  ``1.5.0-0``,  ``1.4.10-0``,  ``1.4.9-0``,  ``1.4.8-0``,  ``1.4.7-0``,  ``1.4.6-0``,  ``1.4.5-1``,  ``1.4.5-0``,  ``1.4.3-1``,  ``1.4.3-0``,  ``1.4.2-0`` .. raw:: html
:depends openjdk: :depends perl: :depends r-base: ``>=3.5.1`` :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 vardict-java and update with:: mamba update vardict-java To create a new environment, run:: mamba create --name myenvname vardict-java 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/vardict-java: (see `vardict-java/tags`_ for valid values for ````) .. |downloads_vardict-java| image:: https://img.shields.io/conda/dn/bioconda/vardict-java.svg?style=flat :target: https://anaconda.org/bioconda/vardict-java :alt: (downloads) .. |docker_vardict-java| image:: https://quay.io/repository/biocontainers/vardict-java/status :target: https://quay.io/repository/biocontainers/vardict-java .. _`vardict-java/tags`: https://quay.io/repository/biocontainers/vardict-java?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/vardict-java/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/vardict-java/README.html