:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'r-virfinder' .. highlight: bash r-virfinder =========== .. conda:recipe:: r-virfinder :replaces_section_title: :noindex: VirFinder\: a novel k\-mer based tool for identifying viral sequences from assembled metagenomic data. :homepage: https://github.com/jessieren/VirFinder :license: USC-RL v1.0 :recipe: /`r-virfinder `_/`meta.yaml `_ :links: doi: :doi:`10.1186/s40168-017-0283-5` .. conda:package:: r-virfinder |downloads_r-virfinder| |docker_r-virfinder| :versions: ``1.1-7``,  ``1.1-6``,  ``1.1-5``,  ``1.1-4``,  ``1.1-3``,  ``1.1-2``,  ``1.1-1``,  ``1.1-0`` :depends bioconductor-qvalue: :depends libgcc-ng: ``>=12`` :depends libstdcxx-ng: ``>=12`` :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-glmnet: :depends r-rcpp: :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 r-virfinder and update with:: mamba update r-virfinder To create a new environment, run:: mamba create --name myenvname r-virfinder 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/r-virfinder: (see `r-virfinder/tags`_ for valid values for ````) .. |downloads_r-virfinder| image:: https://img.shields.io/conda/dn/bioconda/r-virfinder.svg?style=flat :target: https://anaconda.org/bioconda/r-virfinder :alt: (downloads) .. |docker_r-virfinder| image:: https://quay.io/repository/biocontainers/r-virfinder/status :target: https://quay.io/repository/biocontainers/r-virfinder .. _`r-virfinder/tags`: https://quay.io/repository/biocontainers/r-virfinder?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/r-virfinder/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/r-virfinder/README.html